Attachment 2 – Central Valley Project 

Improvement Act Title XXXIV of Public Law 

102-575 Restoration Fund Charters
2

Contents

Description of Charter Information....................................................................................................4

On-Going Fisheries Charters...................................................................................................................6

American River Rotary Screw Trap Monitoring.......................................................................................7

American River Juvenile Salmonid and Habitat Monitoring ................................................................10

American River Salmonid Habitat Restoration.......................................................................................17

Butte Sink/Sutter Bypass - Evaluating the Role(s) of the Butte Sink and Sutter Bypass for 

Butte Creek Spring-Run Chinook Salmon and Other Central Valley Juvenile Salmonid 

Populations...................................................................................................................................................22

Clear Creek Stream Channel Restoration Phase 3C...............................................................................27

Clear Creek Phase 3B Completion ...........................................................................................................34

Clear Creek Gravel Augmentations..........................................................................................................39

Data and Analytic Support.........................................................................................................................44

Delta Tidal Habitat Restoration and Monitoring ...................................................................................49

Feather River: Sunset Pumps Sturgeon and Salmon Passage ...............................................................54

Green Sturgeon Juvenile Investigation ....................................................................................................61

Growing Fish Food: Reintegrating Floodplain Food Web Productivity into the River 

Aquatic Ecosystem......................................................................................................................................66

Measuring the Impact of Removing Predator Contact Points on Juvenile Salmon Survival...........78

Modeling Program.......................................................................................................................................85

Sacramento River – East Sand Slough Restoration..............................................................................101

Sacramento River Tisdale Weir Sturgeon and Salmonid Passage ......................................................105

Sacramento River - Improve Spawning Habitat above Temperature Control Points....................110

Sacramento River Salmonid Habitat Restoration.................................................................................115

Stanislaus River: Migratory Corridor Restoration.................................................................................121

Stanislaus River Rotary Screw Trap Monitoring...................................................................................127

Sutter Bypass Weir 1 Restoration............................................................................................................130

Tracy Fish Facility Improvement Program ...........................................................................................134

New Fisheries Charters......................................................................................................................... 138

Cosumnes River: Adult Escapement Monitoring.................................................................................139

Feather River: Salmonid Spawning Habitat Improvement Project ...................................................142

Feather River/Sutter Bypass - Nelson Slough Floodplain Habitat....................................................145

Stanislaus River: Restoration at Kerr Park.............................................................................................149
3

Sacramento River Salmonid Habitat Improvement - Keswick to Red Bluff ...................................154

Sacramento River Salmonid Habitat Improvement - Red Bluff to Feather River ..........................159

Sacramento River Tributaries Non-Natal Rearing Evaluation and Restoration..............................163

Stanislaus River: Spawning, Side-Channel, and Floodplain Habitat Enhancement Project...........168

Tuolumne River: River Mile 44 Spawning and Rearing Habitat Restoration...................................174

Unfunded Charters................................................................................................................................. 179

Stanislaus River: Large Scale Gravel Augmentation.............................................................................180

Monitoring Chinook salmon smolt out-migration in the Sacramento River in April and 

May Using Acoustic Telemetry ...............................................................................................................185

Dye Creek/Shasta Boulevard Bridge Crossing Project .......................................................................189

Battle Creek Stream Surveys and Temperature Monitoring ...............................................................194

Supplementation of marine derived nutrients in High Elevation Central Valley Spring 

Run Streams...............................................................................................................................................198

Effect of Dam Operations on Upper Sacramento River Winter Chinook Habitat ........................201

Develop a Methodology for Rockwad Habitat Design .......................................................................205

San Joaquin River: Sturgeon Bend White Sturgeon Spawning Habitat Enhancement 

Project.........................................................................................................................................................212

Tuolumne and San Joaquin River Juvenile Habitat Assessment at Dos Rios Ranch......................216

Lower Mokelumne: River Salmonid Spawning and Rearing Habitat Improvement Project.........219

Refuge Water Supply Program Charters..................................................................................... 225

Incremental Level 4 Refuge Water Conveyance...................................................................................226

Incremental Level 4 Water Purchases and L2 Exchanges...................................................................236

Level 2 Refuge Water Conveyance (FY2020) .......................................................................................240

Refuge Construction - Biggs-West Gridley/Gray Lodge WA Project..............................................253

Refuge Construction - East Bear Creek Pump Station Modifications Project.................................256

Refuge Construction - Sutter NWR Lift Station Project.....................................................................259

Independent Programs Charters..................................................................................................... 263

CVP Restoration Fund Trinity River Restoration Program (TRRP) Channel Restoration 

Projects FY20.............................................................................................................................................264

WRR Funding of Trinity River Restoration Program (TRRP) Record Of Decision 

(ROD) Restoration Actions.....................................................................................................................267

San Joaquin River Restoration Program - Mendota Pool Bypass and Reach 2B Project...............274

Habitat Restoration Program (HRP) Protection and Habitat Restoration Projects........................278
4

Description of Charter Information

Classification: Classification of the Charter type according to an overall category and a project type.

Location: Reference to a site name (where available) and a watershed.

Funding Years: Fiscal years covered by the Charter.

Benefits Start Year: When the impacts of the Charter will be realized. Typically, a project would 

become operational following construction, acquisition, or report (in the case of a study) phases of 

an effort.

Priority: Ranking of the Charter within a specific CVPIA authority to provide an understanding of 

the relative importance of different efforts.

Partners: Listing of agencies and entities assisting in the planning and implementation of the 

Charter through the contribution of resources. Resources may include cost-share, in-lieu services, 

use of facilities, or other technical support during the development of a project.

Related Programs: List of related programs and activities supported by the Charter such as BDCP, 

RPA, Recovery Plans, CVJV, etc. to provide an understanding of the relationship between the 

proposed Charter and other efforts by Federal, State, and local entities.

Authority: Provision under the CVPIA supported by the Charter that will allow the government to 

undertake the action and determine the relevant reimbursement and cost-share requirements.

• Authority: One or more legislative provisions for the action and the relative contribution to 

the different provisions of the legislation.

• Percentage: Fraction of the total Charter costs attributable to the Authority.

• Description: Justification for why the Charter is allowable under the Authority and for the 

specific fraction, if applicable.

Metric(s): Anticipated accomplishments from successful completion.

Deliverables: Anticipated documentation and timeline for key activities under the Charter, typically 

public documents and reports that would be referenced by title.

• Date: The estimated year and month when the deliverable will be available.

• Title: The anticipated name or citation of the deliverable.

Narrative: A one or two paragraph(s) description of the Charter background, benefits, deliverables, 

additional information (e.g., cost basis), and changes since prior Charters, if any.

Data Management: Information on where reports and data for this Charter will be permanently 

housed and the relevant protocols for understanding the information.
5

Risks: Narrative or bulleted list of uncertainties and potential project management related issues 

that might change including, the scope, schedule, or budget.

Cost Estimate: Summary of costs by fiscal year and fund. The information in Resources Data 

automatically populates this table.

Activities and Resources: Cost estimates to undertake the activity.

• Type: Category of resource, e.g., labor, equipment, agreement, etc.

• Total: Dollar value of the resource.

• Agency: Agency expending the resource.

• Fund: Source of the resource.

• Description: Text narrative of the activities and basis for the estimate.
6

2020 Annual Work Plan Public Draft

On-Going Fisheries Charters

Central Valley Project Improvement Act

Title XXXIV of Public Law 102-575
7

American River Rotary Screw Trap Monitoring

Annual quantification of juvenile Chinook salmon production and the abundance of juvenile 

steelhead in the American River using rotary screw traps.

DCN: AFRP2129

Classification: Performance Monitoring, Performance Monitoring

Location: American River

Funding Years: 2017 - 2021

Benefits Start Year: 2017

Priority: SIT Critical Monitoring Need - Monitoring of juvenile salmon production on 

the American River provides fundamental data that are necessary to assess 

the biological response to habitat restoration activities in a CVP watershed.

Partners: CDFW, Pacific States Marine Fisheries Commission

Related Programs: Structured Decision Making

Authority

Provision Percentage

(b)(15) CAMP 100%

Metrics

Name Value Units Comment

Count of fish produced 1 number of 

fish

The production or abundance of different life 

stages of juvenile salmon and steelhead are 

calculated on an annual basis based on 

monitoring data that are collected with rotary 

screw traps.

Deliverables

Deliverables in all years of this project will be coordinated with the CVPIA Data Manager, CVPIA 

Science Coordinator, and CVPIA Fish Resource Area Coordinator.

Date Title

Annually Annual American River rotary screw trap report

Project Management Team

Cesar Blanco – USFWS-CVPIA
8

Narrative

The rotary screw trap monitoring activities in the American River supply data that can be used to 

assess the biological response to habitat management activities in the American River watershed. As 

such, they can be used to infer, at a watershed-level scale, how habitat restoration activities are 

affecting the number of juvenile Chinook salmon and steelhead in that river.

Data Management

The PMT Data Steward will coordinate with external partners and biannually with the CVPIA Data 

Manager on the transmission of long-term monitoring and other pertinent data defined by the SIT 

and the PMT per the 2020 Data Guidance.

Field data will be recorded on data sheets or directly into a recording device/computer and 

transferred into a computer spreadsheet or database. The PMT Data Steward will coordinate with 

the CVPIA Data Manager on the transmission of relevant and pertinent data defined by the SIT and 

the PMT per the 2020 Data Guidance. Field data, analyses, and reports will be stored and backed up 

on a PMT computer/server.

Risks

Risk Likelihood Impact

Low, unless funding distribution is delayed 1 2

Cost Estimate

Year Fund Total BOR FWS

2017 CVPRF $223,050 $0 $223,050

2018 CVPRF $221,300 $0 $221,300

2019 CVPRF $231,200 $0 $231,200

2020 CVPRF $225,000 $0 $225,000

2021 CVPRF $231,750 $0 $231,750

Total Cost: $1,132,300
9

Internal Agency Resources Table

Type Name Rate Frac. MU Total Agency Fund Description

2017

Monitoring

Agreement TBD $223,050 1.00 0.00 $223,050 FWS CVPRF NA

2018

Monitoring

Agreement TBD $221,300 1.00 0.00 $221,300 FWS CVPRF NA

2019

Monitoring

Agreement TBD $231,200 1.00 0.00 $231,200 FWS CVPRF NA

2020

Monitoring

Agreement F13AC00053 $225,000 1.00 0.00 $225,000 FWS CVPRF Project cost includes the 6% contract 

overhead cost

2021

Monitoring

Agreement F13AC00053 $231,750 1.00 0.00 $231,750 FWS CVPRF The 2021 project cost uses the prior year cost 

estimate (and therefore includes the 6% 

contract overhead cost) and includes a 3% 

inflation cost.
10

American River Juvenile Salmonid and Habitat Monitoring

This project links modeling and empirical data to evaluate how the existing and potential rearing 

habitat available in the lower American River (LAR) impacts the timing, size, and variation in out 

migration, carrying capacity, and population dynamics of LAR fall-run Chinook salmon.

DCN: AFRP2109

Classification: Monitoring

Location: American River

Funding Years: 2019 - 2021

Benefits Start Year: 2019

Priority: SIT FY2018 Tech Memo:

- Fall Chinook – American River, Improve/increase juvenile rearing habitat 

(floodplain)

- Winter Chinook – Create/improve juvenile rearing habitat in non-natal 

tributaries

Partners: Cramer Fish Sciences, Sacramento Water Forum, cbec, inc., CDFW

Related Programs: CVPIA (b)(13), CVPIA (b)(2)

Authority

Provision Percentage

(b)(15) CAMP 100%

Metrics

Name Value Units Comment

Abundance of recruits 

produced by spawning 

adults in restored 

habitats

1 number 

of fish

Task 3-4: Chinook Salmon otolith and genetic sample 

collection. Data and analyses from this task will 

improve future iterations of the SIT DSM model by 

quantifying how the production potential of habitat 

restoration actions applied in the LAR and how 

different life-history types of fall-run Chinook Salmon 

use rearing habitats in the LAR. These tasks will 

determine how spawning habitat restoration sites 

have enhanced juvenile production and how juvenile 

Chinook Salmon and steelhead utilize existing rearing 

habitat, DSM model information gaps.

DSM parameter 

estimates

1 N/A Task 1: LAR SDM helps inform the broader CVPIA SIT 

and DSM process by improving the precision and 

accuracy of coefficients used in the SIT DSM and the 

life-cycle models for anadromous fishes upon which 

the DSM is based. 

Rearing habitat in the 

LAR

1 acres Task 2: ESHE modeling. This task builds off a 

topographic survey and 2D hydraulic model that has 

been funded by USFWS, Water Forum, and SAFCA. 

Rearing habitat estimates can be calculated for 
11

steelhead and multiple run-timing groups of Chinook 

Salmon. This task will estimate current juvenile rearing 

capacity, a DSM model information gap. 

Abundance of juvenile 

salmonids

1 number 

of fish

Task 4: Annual juvenile salmonid survey. Data 

generated from these surveys will provide abundance 

estimates of steelhead and juvenile chinook rearing in 

restored and unrestored habitats. These data will 

improve habitat-use estimates in the SIT DSM

Sediment volume 1 cubic 

yards

Task 6: Sediment budget modeling. This study would 

compare a 2017 digital elevation model (DEM) with a 

2006 DEM to quantify the change over 11 years, 

resolving the average annual volume of sediment 

exported. Results from this study can be used to 

estimate restoration project lifespan and aid project 

prioritization in the SIT DSM. This task will determine 

how much sediment should be added to the river 

annually and the longevity of gravel augmentation 

projects, DSM model information gaps.

Deliverables

Deliverables in all years of this project will be coordinated with the CVPIA Data Manager, CVPIA 

Science Coordinator, and CVPIA Fish Resource Area Coordinator.

Date Title

Dec. 2020 LAR SDM meeting (Task 1.1)

Dec. 2020 ESHE modeling final report (Task 2.1)

Dec. 2020 AFS symposium proceedings (6 manuscripts) (Task 3.2)

Jan. 2021 Year 3 otolith and genetic data report (Task 3.1)

Feb. 2021 AFS research symposium (Task 3.2)

Dec. 2022 Genetics and otolith data report

Dec. 2022 Juvenile rearing data report

Dec. 2022 Sediment budget report

Project Management Team

Paul Cadrett – USFWS-Lodi (paul_cadrett@fws.gov)

Chris Hammersmark – CBEC – (c.hammersmark@cbecoeng.com)

Lilly Allen – City of Sacramento, The Water Forum – (lallen@cityofsacramento.org)

Joe Merz – Cramer Fish Sciences (jmerz@fishsciences.net)

John Hannon – USBR-BDO

Narrative

1. The SIT DSM model for fall-run Chinook, suggests the Lower American River (LAR) priority is 

increasing juvenile rearing habitat; however, the finer-scale LAR DSM model isn’t as conclusive. 

Information gaps can be filled with studies extending and enhancing existing models. This 
12

charter outlines actions that will better characterize LAR rearing habitat use, resolve 

discrepancies between the SIT and LAR DSM models, and improve our understanding of 

Chinook habitat use in the LAR and delta.

2. The main Core Team priorities addressed in this charter are improving fall-run and winter-run 

Chinook salmon and steelhead juvenile rearing habitat.

• Task 1- Application of the LAR DSM Model

The LAR DSM model will be refined to help prioritize decision making on the LAR, 

identifying future restoration locations and restoration project type to provide the greatest 

benefit toward the doubling goal.

• Task 2- Habitat Modeling

We will quantify existing available habitat and the additional habitat required to reach the 

doubling goal, building on past efforts to model habitat requirements and a 2D 

hydrodynamic model.

• Task 3- Otolith and Genetic Analysis

This task provides funds to complete, and extend, a study conducted from 2014-2016 using 

genetic samples and otoliths from adult and juvenile Chinook to assess reproductive success 

of adults utilizing restored habitats and analyze the effects of water management on 

outmigration timing and life history diversity.

• Task 4- Juvenile Salmonid Monitoring

This task determines steelhead and fall-run Chinook salmon habitat use data within the LAR 

with emphasis on better understanding habitat restoration effects on salmonid rearing, 

growth, and survival.

• Task 5- On-call Modeling

This task supports decision making processes with data and modeling analyses to quantify 

differences between alternatives. Analyses include: redd dewatering estimates, identification 

of stranding areas, monitoring and modeling temperature conditions under various release 

patterns.

• Task 6- Sediment Budget Development

A sediment budget will estimate the average annual volume of material that is exported from 

the LAR, quantifying the annual sediment deficit and developing estimates of the longevity 

of gravel augmentation efforts.

3. See Metrics and Deliverables sections.

4. Short-term objectives and anticipated outcome:

• Refinement and validation of existing LAR DSM, SIT DSM, and ESHE models

• Validated large-scale LAR DEM and 2D hydraulic/habitat suitability models

• Juvenile salmonid outmigration timing, growth, and life-history variants

• Enumeration of steelhead and Chinook rearing in restored and unrestored habitats

• Sediment budget and gravel augmentation project longevity estimate

• Improved tools and on-call analyses to support real-time management decision making

5. Genetic mark-recapture and otolith microchemistry (Task 3) provide a cost-effective means of 

acquiring high-quality data relative to standard monitoring techniques. Data include tracking 

natural production success from restored locations, determining life history diversity, straying, 

and the contribution of hatchery and wild adult Chinook salmon. Task 3 will be conducted in 

collaboration with CDFW and other interested stakeholders, increasing efficiency and 

subsequently reducing costs.
13

6. This charter aims to develop further a DSM tailored to the LAR and apply inference from that 

model in an ARM framework. This charter serves as a large-scale test case for the broader SIT 

DSM and ARM process, where information gained in the LAR will help improve applications in 

other watersheds.

7. This charter will help fill key information gaps in current DSMs; refer to Metrics section for 

specifics.

8. If this charter is not implemented, information gaps will remain that limit the extent to which 

resource agencies can make management decisions that maximize Chinook salmon production.

Data Management

The PMT Data Steward will coordinate with external partners and biannually with the CVPIA Data 

Manager on the transmission of long-term monitoring and other pertinent data defined by the SIT 

and the PMT per the 2020 Data Guidance.

Field data will be recorded on data sheets or directly into a recording device/computer and 

transferred into a computer spreadsheet or database. The PMT Data Steward will coordinate with 

the CVPIA Data Manager on the transmission of relevant and pertinent data defined by the SIT and 

the PMT per the 2020 Data Guidance. Field data, analyses, and reports will be stored and backed up 

on a PMT computer/server.

ESHE model documentation (Task 2) will be submitted as supplemental material with the final 

report.

Genetic and otolith sample databases (Tasks 3 & 4) will be submitted to Center for Data 

Management upon project completion.

Task 5 All field data from juvenile rearing studies will be submitted annually to the Center for Data 

Management.

Task 5 will help bolster DSM models (Task 1) and provide a means of ground-truthing model 

predictions (Task 2). Modeling outputs from Tasks 1, 2, 6, and 7 will leverage existing data from 

previous monitoring efforts to improve the efficiency and effectiveness of management actions.

Data Contact: Paul Cadrett (paul_cadrett@fws.gov)

Risks

Risk Likelihood Impact

High flows 2 2

Not obtaining permits 1 3

Collaboration failure 1 1
14

Cost Estimate

Year Fund Total BOR FWS Local

2019 CVPRF $1,155,400 $0 $1,155,400 $0

2019 Local $150,000 $0 $0 $150,000

20201 CVPRF $0 $0 $0 $0

2021 CVPRF $180,200 $0 $180,200 $0

Total Cost: $1,485,600

1 The FY2019 funding amount of $1,155,400 included $180,200 which was the FY2020 allocated funding for this 

project.
15

Internal Agency Resources Table

Type Name Rate Frac. MU Total Agency Fund Description

2019

Monitoring

Agreement Juvenile Rearing Study $120,000 1.00 0.06 $127,200 FWS CVPRF Tagging and recapture efforts on the LAR. 

Planning and

Analysis

Direct 

Contribution

Quantifying rearing 

habitat for ESHE 

modeling

$100,000 1.00 0.00 $100,000 Local Other Sacramento Area Flood Control Agency 50% 

contribution to the green LiDAR 

topographic survey and 2D hydraulic model.

Agreement Quantifying rearing 

habitat for ESHE 

modeling

$85,000 1.00 0.06 $90,100 FWS CVPRF Build off of topographic survey and 2D 

hydraulic model to quantify the habitat 

required to reach the CVPIA doubling goal.

Direct 

Contribution

Quantifying rearing 

habitat for ESHE 

modeling

$50,000 1.00 0.00 $50,000 Local Other Sacramento Water Forum 25% contribution 

to the green LiDAR topographic survey and 

2D hydraulic model (CVPIA also contributed 

25% toward this effort (2015 funding)).

Agreement On-call modeling $20,000 1.00 0.06 $21,200 FWS CVPRF Support for cbec to provide real-time, oncall modeling

Agreement Modeling sediment 

budget

$35,000 1.00 0.06 $37,100 FWS CVPRF Comparison of 2017 digital elevation model 

(DEM) and 2006 digital elevation model 

(DEM) to quantify changes in sediment 

budget 

Agreement Complete LAR DSM 

model

$50,000 1.00 0.06 $53,000 FWS CVPRF Complete LAR DSM model 

Research

Agreement Otolith and Genetic 

Analysis

$610,000 1.00 0.06 $646,600 FWS CVPRF Otolith microstructure and microchemistry 

analysis and genetics analysis for otoliths 

collected in 2016 and 2018
16

Type Name Rate Frac. MU Total Agency Fund Description

2020

Monitoring

Agreement Juvenile Rearing Study $120,000 1.00 0.06 $127,200 FWS CVPRF Juvenile tagging and recapture efforts on 

the LAR.

Planning and 

Analysis

Agreement Quantifying rearing 

habitat for ESHE 

modeling

$10,000 1.00 0.06 $10,600 FWS CVPRF Update topographic survey and 2D 

hydraulic model to quantify the habitat 

required to reach the CVPIA doubling goal.

Agreement Refine LAR DSM model $20,000 1.00 0.06 $21,200 FWS CVPRF Refine LAR DSM model 

Agreement On-call modeling $20,000 1.00 0.06 $21,200 FWS CVPRF Support for cbec to provide real-time, oncall modeling

2021

Monitoring

Agreement Juvenile Rearing Study $120,000 1.00 0.06 $127,200 FWS CVPRF Juvenile tagging and recapture efforts on 

the LAR.

Planning and

Analysis

Agreement Refine LAR DSM model $20,000 1.00 0.06 $21,200 FWS CVPRF Refine LAR DSM model 

Agreement On-call modeling $20,000 1.00 0.06 $21,200 FWS CVPRF Support for cbec to perform real-time, oncall modeling

Agreement Quantifying rearing 

habitat for ESHE 

modeling

$10,000 1.00 0.06 $10,600 FWS CVPRF Update topographic survey and 2D 

hydraulic model to quantify the habitat 

required to reach the CVPIA doubling goal.
17

American River Salmonid Habitat Restoration

Restore juvenile Chinook salmon and steelhead rearing habitat and enhance natural channel 

processes on the lower American River.

DCN: AFRP2112

Classification: Habitat Improvement, Habitat Restoration

Location: Ancil Hoffman, American River

Funding Years: 2017 - 2022

Benefits Start Year: 2018

Priority: SIT FY2018 Tech Memo:

Fall Chinook – American River, Improve/increase juvenile rearing habitat 

(floodplain)

Winter Chinook – Create/Improve juvenile rearing habitat in non-natal 

tributaries

Partners: NMFS, Sacramento County, Sacramento Water Forum, SAFCA, USBR, 

CDFW, FWS

Related Programs: NMFS, CDFW

Authority

Provision Percentage

(b)(13) 100%

Metrics

Name Value Units Comment

Large Chinook 

emigrants

24000 number of 

fish

Assumes 2 large Chinook supported per square 

meter of rearing habitat (SIT value)

Habitat 

created/improved

3 acres Estimate that 3 acres of rearing habitat will be 

created/improved

Material moved 25000 cubic yards Estimate that 25,000 cubic yards of material will 

be moved and 100 - 200 pieces of large wood 

added.

Deliverables

Deliverables in all years of this project will be coordinated with the CVPIA Data Manager, CVPIA 

Science Coordinator, and CVPIA Fish Resource Area Coordinator.

Date Title

Nov. 2018 Habitat project completed - ~3 acres of new habitat

May. 2019 Aerial photos and shapefile of Chinook spawning locations

Sep. 2019 Effectiveness Monitoring Report

Nov. 2020 The cycle above repeats annually
18

Project Management Team

John Hannon (USBR)

Paul Cadrett (USFWS)

Lilly Allen (Water Forum)

Mike Healey (CDFW)

Ruth Goodfield (NMFS)

Narrative

1. The project creates and enhances juvenile rearing habitat for Chinook salmon and steelhead by 

increasing floodplain and side channel habitat, incorporating new woody material, and adding 

coarse substrate. This is a continuation of annual restoration actions that started in 2008. The 

2020 project location will be Ancil Hoffman, Lower Sailor, or El Manto. The project 

management team will determine the ultimate location each year following completion of the 

prior year (2019) project and synthesis of past monitoring results.

2. Specific activities include side channel and floodplain excavation, sorting of the excavated 

material, placement of the suitable sorted material into the river channel, and addition of woody 

material and boulders and monitoring the effectiveness of that work. A companion charter to 

this charter (American River Structured Decision Making) includes an additional monitoring 

component of the work.

3. The projects seek to increase the abundance and size of juvenile salmonids emigrating from the 

American River and ultimately result in a higher naturally produced salmonid return.

4. The 2018 project will be designed to produce approximately 24,000 large Chinook emigrants, 

based on the SIT value of 2 large Chinook/m**2, and also benefit juvenile steelhead habitat 

productivity.

5. Permits are largely in hand, so most of the funding supports on the ground restoration work.

6. The objective is to provide suitable rearing habitat adjacent to and downstream of spawning 

areas. Secondary benefits are encouragement of natural river processes through scaling of habitat 

to the flow regime.

7. Implementation is led by the successful collaboration with the diverse American River 

stakeholders of the Water Forum and Northern California Water Agency salmon plan, American 

River FISH group, and American River Parkway Advisory committees. Sacramento Area Flood 

Control Agency provides approximately $100,000 cost share for the Paradise Beach juvenile 

rearing habitat project. The Water Forum contributes the time and resources their staff spends 

on the project.

8. No specific objections to the charter are known. Occasionally local interested parties have sitespecific concerns relating to walking paths, dust, turbidity, perceived mining activity, or effects 

to boating features. These will be worked out as they occur on a one on one basis with the 

interested individuals.

Data Management

The PMT Data Steward will coordinate with external partners and biannually with the CVPIA Data 

Manager on the transmission of long-term monitoring and other pertinent data defined by the SIT 

and the PMT per the 2020 Data Guidance.
19

Field data will be recorded on data sheets or directly into a recording device/computer and 

transferred into a computer spreadsheet or database. The PMT Data Steward will coordinate with 

the CVPIA Data Manager on the transmission of relevant and pertinent data defined by the SIT and 

the PMT per the 2020 Data Guidance. Field data, analyses, and reports will be stored and backed up 

on a PMT computer/server.

1. Project designs and as-built survey results will be included in a basis of design report prepared by 

CBEC under contract with the Water Forum. The monitoring included in this charter includes 

riverwide aerial photography conducted during Chinook spawning in November and December. 

The photography provides for a river-wide redd count and enables the visible redds to be 

mapped in a GIS shapefile. It also provides a visual as-built view of the current year project and 

of changes that occur at other project sites and throughout the river through time. In addition,

monitoring includes high priority effectiveness monitoring activities that contribute to the 

American River structured decision making. Effectiveness monitoring would also be achieved 

through a companion charter (American River SDM project).

2. CVPIA data management center to be utilized when available.

3. Relates to the objective of providing rearing habitat close to spawning habitat and helps 

determine project longevity at all sites to feed into back improving effectiveness of future habitat 

improvement designs.

4. Data will be housed at the Bureau of Reclamation Bay Delta Office, US Fish and Wildlife 

Service Stockton Office, and the Sacramento Water Forum office. Contact John Hannon at 

jhannon@usbr.gov for data.

Risks

Risk Likelihood Impact

Flows too high to work in river 1 3

Permits not obtained 1 3

Cost Estimate

Year Fund Total BOR FWS

2018 CVPRF $1,000,000 $1,000,000 $0

2019 CVPRF $1,000,000 $1,000,000 $0

2020 CVPRF $1,000,000 $1,000,000 $0

2021 CVPRF $1,000,000 $1,000,000 $0

2022 CVPRF $1,000,000 $1,000,000 $0

Total Cost: $5,000,000
20

Internal Agency Resources Table

Type Name Rate Frac. MU Total Agency Fund Description

2018

Construction

Agreement Sacramento 

Water Forum

$985,000 1.00 0.00 $985,000 BOR CVPRF Financial Assistance Agreement for project 

management and implementation. The Water 

Forum staff support is provided as an in-kind 

donation.

Monitoring

Agreement Contract $15,000 1.00 0.00 $15,000 BOR CVPRF Aerial photography FAR contract solicited through 

competitive bid.

2019

Construction

Agreement Sacramento 

Water Forum

$985,000 1.00 0.00 $985,000 BOR CVPRF Financial Assistance Agreement for project 

management and implementation. The Water 

Forum staff support is provided as an in-kind 

donation.

Monitoring

Agreement Contract $15,000 1.00 0.00 $15,000 BOR CVPRF Aerial photography FAR contract solicited through 

competitive bid.

2020

Construction

Labor Sacramento 

Water Forum

$985,000 1.00 0.00 $985,000 BOR CVPRF Financial Assistance Agreement for project 

management and implementation. The Water 

Forum staff support is provided as an in-kind 

donation.

Labor Contract $15,000 1.00 0.00 $15,000 BOR CVPRF Aerial photography FAR contract solicited through 

competitive bid

2021

Construction
21

Type Name Rate Frac. MU Total Agency Fund Description

Agreement Sacramento 

Water Forum

$985,000 1.00 0.00 $985,000 BOR CVPRF Financial Assistance Agreement for project 

management and implementation. The Water 

Forum staff support is provided as an in-kind 

donation.

Monitoring

Labor Contract $15,000 1.00 0.00 $15,000 BOR CVPRF Aerial photography FAR contract solicited through 

competitive bid

2022

Construction

Agreement Sacramento 

Water Forum

$985,000 1.00 0.00 $985,000 BOR CVPRF Financial Assistance Agreement for project 

management and implementation. The Water 

Forum staff support is provided as an in-kind 

donation

Monitoring

Agreement Contract $15,000 1.00 0.00 $15,000 BOR CVPRF Aerial photography FAR contract solicited through 

competitive bid
22

Butte Sink/Sutter Bypass - Evaluating the Role(s) of the Butte Sink 

and Sutter Bypass for Butte Creek Spring-Run Chinook Salmon 

and Other Central Valley Juvenile Salmonid Populations

This proposal will evaluate the growth benefits of the Sutter Bypass and compare survival between 

the Sacramento River and lower Butte Creek/Sutter Bypass area.

DCN: AFRP2103

Classification: Research, Monitoring

Location: Sutter Flood Control Bypass, Butte Creek

Funding Years: 2019 - 2023

Benefits Start Year: 2019

Priority: SIT FY2020 Tech Memo

- Increase access to juvenile rearing habitat in Sutter and Yolo Bypasses

- Increase access to non-natal tributaries to open up habitat in Upper and 

Upper Mid Sacramento River, Aug-March

The NMFS 2014 Recovery Plan for Central Valley Chinook Salmon and 

steelhead supports 'Implement projects to increase Butte Creek floodplain 

habitat availability to improve habitat conditions for juvenile rearing' Butte 

Creek Action ID 2.14

Partners: DWR, Golden Gate Salmon Association, Metropolitan Water District, NMFS, 

UC-Davis, USFWS

Related Programs: NMFS-RP

Authority

Provision Percentage

(b)(15) CAMP 100%

Metrics

Name Value Units Comment

Evaluation of Survival 1 percentage 

of fish

Tagged Fish will be evaluated for percentage of

survival.

Evaluation of Fish 

Growth

1 percentage 

of fish

Chinook will be evaluated for enhanced fish 

condition.

Food Web Productivity 1 metadata Water samples collected for invertebrate diversity 

analysis.
23

Deliverables

Deliverables in all years of this project will be coordinated with the CVPIA Data Manager, CVPIA 

Science Coordinator, and CVPIA Fish Resource Area Coordinator.

Date Title

Jun. 2021 Annual Report

Mar. 2023 Final Report

Jun. 2022 Annual Report

Project Management Team

Jim Early – USFWS-RBFO

Matt Brown – USFWS-RBFO

Cesar Blanco – USFWS-CVPIA

Derek Rupert – USBR-NCAO

Elissa Buttermore – USBR-BDO

Narrative

This project was previously approved in the FY19 Annual Work Plan based on the FY19 Priorities 

of improve rearing habitat for winter-run Chinook salmon and improve survival for juveniles on 

Butte Creek. Both runs are being observed in the Sutter Bypass. Continuing the study has both 

short-term objective-specific monitoring elements by providing real time input on habitat condition, 

as well as long-term trend monitoring elements, as the project can be used to assess trends if/when 

habitat expansion occurs via a change in operations, restoration, etc. The FY20 Call for Project 

Proposals identifies in Table 2: Juvenile tributary survival as a Tier 1 Priority and juvenile river 

growth as a Tier 2 Priority. This project will continue to provide critical data to inform the Peterson 

2014 DSM.

The Butte Creek spring-run Chinook salmon have been a relatively successful and stable population 

compared to other populations in the Central Valley. To date, there is little data to suggest the 

mechanism for this relative success. NOAA Fisheries designated Butte Creek and Sutter Bypass as a 

critical habitat for Central Valley spring-run Chinook salmon.

The purpose of this study is to quantify the benefits of the flooded Sutter Bypass and Butte Sink for 

juvenile Chinook salmon compared to adjacent main river channel habitats. Future management 

actions can utilize this information to maximize benefits to juvenile salmon and help enhance the 

abundance of Chinook salmon populations in the Central Valley. Consequently, it is crucial to first 

have a better understanding of what mechanisms and locations create high quality habitat for 

juvenile salmonids. To do this, we propose to address the following questions:

1. How does the hydrology of the lower Butte Creek (Butte Sink and Butte Slough) and the 

Sutter Bypass affect juvenile salmon?

2. What are the growth benefits of juvenile salmonids rearing in the lower Butte Creek and 

Sutter Bypass?

3. What runs of Salmon utilize the Sutter Bypass?
24

The NMFS 2014 Recovery Plan for Central Valley Chinook Salmon and Steelhead supports 

'Implement projects to increase Butte Creek floodplain habitat availability to improve habitat 

conditions for juvenile rearing' Butte Creek Action ID 2.14.

Data Management

The PMT Data Steward will coordinate with external partners and biannually with the CVPIA Data 

Manager on the transmission of long-term monitoring and other pertinent data defined by the SIT 

and the PMT per the 2020 Data Guidance.

Field data will be recorded on data sheets or directly into a recording device/computer and 

transferred into a computer spreadsheet or database. The PMT Data Steward will coordinate with 

the CVPIA Data Manager on the transmission of relevant and pertinent data defined by the SIT and 

the PMT per the 2020 Data Guidance. Field data, analyses, and reports will be stored and backed up 

on a PMT computer/server.

This project proposal supports overall FY20 SIT priorities by collecting and providing information 

for the DSM on fish survival, habitat availability, flow and temperature for Chinook salmon. 

Additionally, it addresses juvenile tributary survival, and the value of increasing perennially 

inundated juvenile habitat in the Sacramento River for all runs of Chinook salmon.

Data will be maintained and housed at UC Davis and reports submitted to USFWS at 

https://www.fws.gov/redbluff/afrp.html

Risks

Risk Likelihood Impact

Impacts to wild spring Chinook 2 1

Cost Estimate

Year Fund Total BOR FWS

2019 CVPRF $775,720 $0 $775,720

20202 CVPRF $17,925 $0 $17,925

2021 CVPRF $441,500 $0 $441,500

Total Cost: $1,235,145

2 The FY2019 funding amount of $775,720 included $388,169, which was the FY2020 allocated funding for this project. 

The $17,925 is additional FY20 funding to cover added genetic sampling, water sampling, and materials as part of the 

original agreement.
25

Internal Agency Resources Table

Type Name Rate Frac MU Total Agency Fund Description

2019

Management

Labor Labor UCD $149,268 1.00 0.00 $149,268 FWS CVPRF Growth Study

Labor Overhead CESU $60,504 1.00 0.00 $60,504 FWS CVPRF Overhead @ 18.5%

Labor Labor USCS $137,279 1.00 0.00 $137,279 FWS CVPRF Growth Study

Labor Travel $3,000 1.00 0.00 $3,000 FWS CVPRF Overhead @ 18.5%

Research

Equipment or 

Materials

Juvenile Rearing 

Cages and PIT 

supplies

$17,500 1.00 0.00 $17,500 FWS CVPRF Juvenile Rearing Cages and PIT supplies

Agreement Data Analysis $20,000 1.00 0.00 $20,000 FWS CVPRF Genetic otolith analysis

2020

Management

Labor Travel $5,088 1.00 0.00 $5,088 FWS CVPRF Travel for Meetings and Conferences for Project 

Representatives

Labor Labor $364,342 1.00 0.00 $364,342 FWS CVPRF Growth Study, Hydrology, Food Web and Water Quality 

sampling Labor includes staff from UCD and NOAA

Research

Equipment or 

Materials

Sampling $11,483 1.00 0.00 $11,483 FWS CVPRF Materials and Supplies - cages, DO sensors, Field 

Supplies, PPE Gear, Lab Supplies, Data Supplies, Vehicle 

rental

Labor Data Analysis $7,256 1.00 0.00 $7,256 FWS CVPRF Genetic analysis from our wild fish collection 200-250 

Samples

2021

Management

Labor Labor $416,782 1.00 0.00 $416,782 FWS CVPRF Growth Study, Hydrology, Food Web and Water Quality 

sampling Labor includes staff from UCD and NOAA

Labor Scientific 

Publications

$4,081 1.00 0.00 $4,081 FWS CVPRF Scientific Peer Review and Publications

Labor Travel $5,438 1.00 0.00 $5,438 FWS CVPRF Travel for Meetings and Conferences for Project 

Representatives
26

Type Name Rate Frac MU Total Agency Fund Description

Research

Equipment or 

Materials

Sampling $7,579 1.00 0.00 $7,579 FWS CVPRF Materials and Supplies - cages, DO sensors, Field 

Supplies, PPE Gear, Lab Supplies, Data Supplies, Vehicle 

rental

Labor Data Analysis $7,620 1.00 0.00 $7,620 FWS CVPRF Genetic analysis from our wild fish collection 200-250 

Samples
27

Clear Creek Stream Channel Restoration Phase 3C

This project completes the final phase of the 1999 Clear Creek Floodway Restoration Project 

conceptual plan. The project improves the stream channel, floodplains, and associated habitats of 

the Phase 3C site increasing spawning and rearing habitat for salmonids.

DCN: AFRP2128

Classification: Habitat Improvement, Habitat Restoration

Location: Clear Creek

Funding Years: 2017 - 2022

Benefits Start Year: 2020

Priority: This project addresses the legislative 3406(b)(12) priority.

Partners: BLM, CDFW, DWR, FWS

Related Programs: Clear Creek Technical Task Force

Authority

Provision Percentage

(b)(12) 100%

Metrics

Name Value Units Comment

Wetland and riparian 

planting and maintenance

12.4 acres

Upland seeding and 

mulching

29.8 acres

Deliverables

Deliverables in all years of this project will be coordinated with the CVPIA Data Manager, CVPIA 

Science Coordinator, and CVPIA Fish Resource Area Coordinator.

Date Title

Dec. 2020 Quarterly updates to Phase 3C Project Management Team and CCTT

Sep. 2023 Report - fish, riparian, geomorphic

Project Management Team

Sean Frische – Project Manager, USBR-MPCO

Derek Rupert – Fish Biologist, USBR-NCAO

Matt Brown – Fish Biologist – RBFWS

Charles Chamberlain – Fish Biologist – RBFWS

Tricia Bratcher – Environmental Scientist – DFW

Mike Berry – Environmental Scientist – DWR

Laura Brodhead – Ecologist – BLM.
28

Narrative

Phase 3C is the final phase of a 2-mile multi-phase restoration plan described in the Conceptual Plan 

(M&T 1999) and Clear Creek Technical and Design Document (M&T 1999). Phase 3C will create 

floodplain and stream channels in the lowest part of this 2-mile reach.

The project includes elements to enhance riverine and riparian functions, and aquatic habitats. 

Channel re-alignment will return the main channel to its historic alignment, lengthen the main 

channel, increase sinuosity, and establish a more complex channel with suitable stream bed materials 

for spawning. Channel split features will increase shoreline area for fry habitat. Additional channels 

and alcoves will be built to inundate at 200 cfs to expand fish rearing habitat at frequent flows. An 

off-channel pond with adjacent seasonal wetlands will increase habitat diversity and create offchannel rearing habitat. The project will expand seasonal wetlands, increase and enhance riparian, 

emergent, and wetland vegetation, and create floodplain surfaces which are at suitable elevations to 

increase natural recruitment of cottonwoods.

The design incorporates Beaver Dam Analogues (BDA’s) to mimic the natural form and function of 

beaver dams, where surfaces are wetted through increased backwatering. Each BDA allows juvenile 

fish to migrate downstream through the structures. Organic materials used to initiate the structure 

will break down over time. There are numerous beavers in the project area and the structure may be 

maintained and repaired by natural beaver colonization. In the absence of maintenance by the 

existing beaver population, annual maintenance (~1 day/year) is required. If BDA’s are not 

maintained, the earthen bases of the BDAs and the pond control structure will retain water in the 

ponds and fish passage between the ponds, but water levels will be lower, and less area of the pond 

will have adequate depth to meet temperature targets.

Approximately 2 acres of lowered floodplain are incorporated into the 90% design. These surfaces 

will be lowered approximately 1–5 ft to create floodplain surfaces which are inundated at flows 

between 200 and 1,000 cfs. Lowered floodplain areas will increase the connectivity between 

floodplain surfaces and the active channel. Increased floodplain conductivity will increase natural 

cottonwood recruitment, increase habitat complexity, provide rearing habitat, and create velocity 

refugia for salmonids and other aquatic species across a broad range of flows greater than base flow. 

These lowered areas may naturally develop additional scour channels, maintaining a complex 

network of channels and floodplain surfaces that are activated over a range of flows.

Some of the plant materials included in the 90% revegetation design were selected to be installed 

and established with minimal post-project irrigation. Riparian and emergent plantings were intended 

to be installed into substrates that are in contact with the summer and fall late season groundwater 

capillary fringe. Soil moisture and shallow groundwater were intended to be the main water available 

to those plantings; because of this, plantings must be done correctly at the specified depths to be 

successful. Pole cuttings must be installed directly into visible groundwater to survive with minimal 

irrigation.

Without irrigation, it can be expected that there will be areas of high survival and areas with little or 

no survival. The 90% revegetation strategy relies heavily on nursery-grown plants, and one 

revegetation goal is to establish healthy and vigorously growing plants. To accomplish this goal, 

irrigation is often necessary to protect vulnerable plantings from installation and thermal stress. 
29

Thermal stress may be the result of low ambient moisture, lack of precipitation, and high 

temperatures that exist during summer conditions when projects are constructed and in subsequent 

summers before tree/shrub canopies can be established.

Data Management

The PMT Data Steward will coordinate with external partners and biannually with the CVPIA Data 

Manager on the transmission of long-term monitoring and other pertinent data defined by the SIT 

and the PMT per the 2020 Data Guidance.

Field data will be recorded on data sheets or directly into a recording device/computer and 

transferred into a computer spreadsheet or database. The PMT Data Steward will coordinate with 

the CVPIA Data Manager on the transmission of relevant and pertinent data defined by the SIT and 

the PMT per the 2020 Data Guidance. Field data, analyses, and reports will be stored and backed up 

on a PMT computer/server.

Information for the charter including relevant protocols for understanding the information will be 

permanently housed at Northern California Area Office of Reclamation and the Red Bluff Fish and 

Wildlife Office of the Service.

Habitat modeling of existing and proposed condition will be compared to assess the benefit of 

Phase 3C – primarily to juvenile salmonid rearing, but also to spawning. InSALMO will be utilized 

to make a model-based prediction of the production difference between existing and proposed 

conditions. Coordination will also occur to asses model comparisons based on the coarse resolution 

model of the Decision Support Model (DSM) being used to evaluate restoration metrics on the 

much broader scale. InSALMO and DSM results will be assessed for differences in the two 

approaches.

Risks

Risk Likelihood Impact

Cost estimate higher than expected 2 2
30

Cost Estimate

Year Fund Total BOR FWS

2017 CVPRF $4,397,469 $3,899,639 $497,830

2018 CVPRF $1,000,000 $900,000 $100,000

2019 CVPRF $406,316 $406,316 $0

2020 CVPRF $737,990 $737,990 $0

2021 CVPRF $83,840 $83,840 $0

2022 CVPRF $83,840 $83,840 $0

2023 CVPRF $25,000 $25,000 $0

Total Cost: $6,734,455
31

Internal Agency Resources Table

Type Name Rate Frac MU Total Agency Fund Description

2017

Construction

Labor Environmental permitting $25,653 1.00 0.00 $25,653 BOR CVPRF

Labor Fish biologist $239,150 0.20 0.00 $47,830 FWS CVPRF Pre-project juvenile salmon habitat use 

study to evaluate the effectiveness of the 

project and inform critical uncertainties 

of DSM.

Labor Project management $50,000 1.00 0.00 $50,000 BOR CVPRF

Agreement Construction contract $2,700,000 1.00 0.00 $2,700,000 BOR CVPRF Design build construction contract

Labor Design and data collection $275,986 1.00 0.00 $275,986 BOR CVPRF Includes design and value engineering 

costs

Agreement Avian surveys $225,000 1.00 0.00 $225,000 FWS CVPRF Pre- and post-project avian surveys to 

evaluate the effectiveness of the entire 

project and to document progress 

towards mitigation requirements.

Agreement Land acquisition $180,000 1.00 0.00 $180,000 BOR CVPRF Agreement with BLM to acquire private 

property in project footprint required for 

construction.

Contingency Non-contract costs $500,000 1.00 0.00 $500,000 BOR CVPRF Contingency of approximately 20% for 

construction of Phase 3C

Agreement Vegetation surveys $225,000 1.00 0.00 $225,000 FWS CVPRF Pre- and post-project vegetation surveys 

to evaluate the effectiveness of the entire 

project and to document progress 

towards mitigation requirements.

Labor Construction management 

and procurement

$18,000 1.00 0.00 $18,000 BOR CVPRF

Agreement Complete revegetation, 

wetlands creation and road 

removal

$150,000 1.00 0.00 $150,000 BOR CVPRF Complete work including revegetation, 

road removal and re-alignment, and 

wetlands creation and modification that 

was not completed in Phase 3B due to 

lapse in contract.
32

Labor TSC-Sediment/River $35,000 1.00 0.00 $35,000 BOR CVPRF Design

Labor TSC-Sediment/River $50,473 1.00 0.00 $50,473 BOR CVPRF Design support during construction

Type Name Rate Frac MU Total Agency Fund Description

2018

Construction -

Phase 3C of 

Stream Channel 

Restoration 

Project

Agreement $900,000 n/a BOR CVPRF Note: $4,900,000 of the total 

Design/Build contract anticipated award 

in FY18. ~$5,450,000 is a recent estimate 

for the entire contract plus contingencies 

based on work provided by Reclamation. 

The $0.9 mil in FY18 plus $4.0 mil carried 

over from FY17 funds construction.

Evaluate Phase 

3C performance 

using 

geomorphic, 

fish, avian, 

riparian, herp 

and mercury 

monitoring

Agreement $100,000 n/a FWS CVPRF Supplemental funding for monitoring 

described in project proposal potentially 

including fish, geomorphological, avian, 

riparian, and herpetological and mercury 

evaluations. Information for evaluation of 

impacts and effectiveness.

2019

Design Data
33

Environmental 

Compliance and 

Permitting

Labor MP Environmental Group $51,000 1.00 0.00 $51,000 BOR CVPRF Environmental permitting

Management

Labor MPCO $200,000 1.00 0.00 $200,000 BOR CVPRF Project management

Labor MPCO $58,930 1.00 0.00 $58,930 BOR CVPRF Construction management

Labor MPCO 3800 $10,913 1.00 0.00 $10,913 BOR CVPRF Procurement admin

2020

Implementation

Labor TSC - Sediment/ River group $302,000 0.08 0.00 $24,160 BOR CVPRF

Labor Mid Pacific Contract Office CM $269,000 0.31 0.00 $83,390 BOR CVPRF

Labor Mid Pacific Contract Office 

PM

$269,000 0.20 0.00 $53,800 BOR CVPRF

Monitoring

Labor MP Environmental Group $208,000 0.08 0.00 $16,640 BOR CVPRF

2021

Implementation

Labor Mid Pacific Contract Office 

PM

$269,000 0.11 0.00 $29,590 BOR CVPRF

Labor TSC - Sediment/ River group $302,000 0.08 0.00 $24,160 BOR CVPRF

Labor Mid Pacific Contract Office 

CM

$269,000 0.05 0.00 $13,450 BOR CVPRF

Monitoring

Labor MP Environmental Group $208,000 0.08 0.00 $16,640 BOR CVPRF

2022

Implementation

Labor Mid Pacific Contract Office CM $269,000 0.05 0.00 $13,450 BOR CVPRF

Labor TSC-Sediment/River group $302,000 0.08 0.00 $24,160 BOR CVPRF

Labor MP Contract Office PM $269,000 0.11 0.00 $29,590 BOR CVPRF

Monitoring

Labor MP Environmental Group $208,000 0.08 0.00 $16,640 BOR CVPRF

2023

Labor MPCO $25,000 1.00 0.00 $25,000 BOR CVPRF
34

Clear Creek Phase 3B Completion

This project completes Phase 3B floodplain restoration actions that were unfinished/unfunded at 

time of original construction due to State bond crisis. This project fulfills commitments made to 

permitting agencies, the public, and landowners.

DCN: AFRP2127

Classification: Habitat Improvement, Administration

Location: Lower Clear Creek (Downstream of Whiskeytown Dam), Clear Creek

Funding Years: 2018 - 2021

Benefits Start Year: 2021

Priority: This project addresses the legislative 3406(b)(12) priority.

Partners: CDWR, NMFS, NPS, NRCS, Point Blue Conservation Science, Western 

Shasta Resource Conservation District, BLM, CDFW

Related Programs: NMFS-RPAs, CALFED, NMFS-RP

Authority

Provision Percentage

(b)(12) 100%

Metrics

Name Value Units Comment

(b)(12): Stream 

Channel restored 

(miles)

2 miles CPAR goal was 2 miles for the entire program 

based on the length of the first stream channel 

restoration project proposal in 1999. Subsequent 

projects and those currently under consideration 

could exceed metric value.

Permit requirement 1 completion Permit requirement1completionAddress 

commitments made to Corps and BLM as the 

public landowner regarding the mass balance of 

riparian and wetland loss/creation over the Lower 

Clear Creek Floodway Rehabilitation effort. This 

project will complete floodplain work that was left 

unfunded at the time of construction of Phase 3B.

Deliverables

Deliverables in all years of this project will be coordinated with the CVPIA Data Manager, CVPIA 

Science Coordinator, and CVPIA Fish Resource Area Coordinator.

Date Title

Mar. 2020 Wetland balance analysis. 

Jun. 2020 Phase 3B Completion bid documents

Oct. 2020 Award Design-Build contract. 
35

Date Title

Dec. 2021 As-built project data package

Nov. 2022 Final project completion report

Project Management Team

Sean Frische – Project Manager, USBR-MPCO

Derek Rupert – Fish Biologist, USBR-NCAO

Matt Brown – Fish Biologist – RBFWS

Charles Chamberlain – Fish Biologist – RBFWS

Tricia Bratcher – Environmental Scientist – DFW

Mike Berry – Environmental Scientist – DWR

Laura Brodhead – Ecologist – BLM.

Narrative

Initial construction portions of the Lower Clear Creek Phase 3B Restoration project were completed 

in the late 2000’s. Final floodplain modifications, wetland, and riparian replanting efforts for the site 

were to be funded by the State of California, but a portion of those tasks were not completed due to

the California Bond Crisis (2008). The purpose of this charter is to finish restoration at the Phase 3B 

Restoration site and realize the complete benefits of a fully constructed site. Additionally, in 

discussions regarding other Lower Clear Creek Floodway Restoration Project phases, the Army 

Corps of Engineers (Corps) has expressed concern regarding the balance of wetland and riparian 

loss and creation over the 20-year multiple phase period of the lower Clear Creek Floodway 

Restoration Program, of which Phase 3C is the final remaining piece (scheduled for 2019 

construction and completion). The Corps wants a final accounting of the loss/creation balance. This 

Phase 3B Completion project provides an opportunity to address the Corps’ concerns regarding the 

balance of wetlands. This project is critical for meeting the commitments CVPIA has made to 

permitting agencies and the landowner (BLM). These commitments will also improve floodplain 

habitats for salmon and terrestrial species by creating additional floodplain habitat (riparian, 

wetland), reducing fragmentation between earlier revegetated section of the floodplain, and further 

augmenting spawning habitat.

The Phase 3B Completion project supports CVPIA goals and 2019 SIT priorities. Clear Creek 

stream restoration was individually called out in the CVPIA, under section b(12), and Phase 3B in an 

integral part of this large effort. Phase 3B completion project supports three SIT priorities: 1) 

Increasing seasonally inundated juvenile Chinook Salmon habitat, 2) Increase perennially inundated 

juvenile Chinook Salmon habitat, and 3) maintain spawning habitat in CVP streams.

The first steps to the Phase 3B Completion project began in 2019, with CVPIA funds, with a 

thorough inventory of the current site conditions (e.g. wetlands delineation and site evaluations). 

From this preliminary information, the Clear Creek Technical Team will prioritize and select key 

aspects of the Phase 3B site to address. Known issues include, wetlands creation, road 

decommissioning, road re-routing, revegetation, and poor floodplain performance.

Planned project schedule:

FY2019 – Wetland Delineation
36

FY 2020 – Design, NEPA, and permitting. A contract (via competitive bid) will be established to 

design and engineer a plan for implementing the key components selected by the CCTT. This 

contract will also incorporate any NEPA and permit applications needed to complete the work.

FY 2021- Construction and implementation. A contract (via competitive bid) will be established to 

implement the designed plans and CCTT selected components. This contract will include year-1 of 

re-vegetation irrigation and an as-build data package.

FY 2022 – Irrigation and final clean up. A contract (via competitive bid [may be inclusive of 

Construction and Implementation Contract above]) will be established to complete the second (and 

final) year of revegetation irrigation and to clear up any remnant project infrastructure. This contract 

will also include a final project completion report.

Data Management

The PMT Data Steward will coordinate with external partners and biannually with the CVPIA Data 

Manager on the transmission of long-term monitoring and other pertinent data defined by the SIT 

and the PMT per the 2020 Data Guidance.

Field data will be recorded on data sheets or directly into a recording device/computer and 

transferred into a computer spreadsheet or database. The PMT Data Steward will coordinate with 

the CVPIA Data Manager on the transmission of relevant and pertinent data defined by the SIT and 

the PMT per the 2020 Data Guidance. Field data, analyses, and reports will be stored and backed up 

on a PMT computer/server.

Information for the charter including relevant protocols for understanding the information, will be 

permanently housed at Northern California Area Office of Reclamation and the Red Bluff Fish and 

Wildlife Office of the Service.

Short-term Objective Specific Monitoring: At the Phase 3B site, STOS monitoring will evaluate the 

projects performance in meeting the CCTT selected key components. This could include wetlands 

performance evaluations, revegetation performance, floodplain inundation levels, juvenile fish 

habitat creation, and aesthetic resource evaluations, among others.

Long-term Trend Monitoring: At the Phase 3B site, LTT monitoring will continue to access the 

overall performance of the LCCFRP. This includes (but in not limited to) adult salmonid 

escapement levels, salmonid spawning assessments, juvenile production, egg-to-fry survival 

assessments, geomorphic evaluations, avian response, and habitat assessments.

Risks

Risk Likelihood Impact

Floodway wetland inventory identifies wetland creation needs 

that exceed available budget.

2 2
37

Cost Estimate

Year Fund Total BOR FWS

2018 CVPRF $0 $0 $0

2019 CVPRF $35,0003 $35,000 $0

2020 CVPRF $200,000 $200,000 $0

2021 CVPRF $75,000 $75,000 $0

Total Cost: $310,000

3 No funds spent in FY18. This charter supersedes the FY18 Charter.
38

Internal Agency Resources Table

Type Name Rate Frac. MU Total Agency Fund Description

2019

Construction

Agreement Construction 

contract

$35,000 1.00 0.00 $35,000 BOR CVPRF Wetland delineation

2020

Construction

Agreement Construction 

contract

$150,000 1.00 0.00 $150,000 BOR CVPRF Initial estimate of design and 

construction costs for Phase 3B 

Completion

Planning and 

Analysis

Labor Natural Resource 

Specialist

$50,000 0.10 0.00 $50,000 BOR CVPRF Inventory and account for mass balance 

of wetland creation and loss over the 

approximate 20-year period of the 

Lower Clear Creek Floodway Restoration 

Program. Quantify wetland creation 

needed to meet long-term commitment 

to ACOE and BLM.

2021

Construction

Labor Contingency $75,000 1.00 0.00 $75,000 BOR CVPRF 50% of estimated construction cost.
39

Clear Creek Gravel Augmentations

Place gravel into Clear Creek to provide spawning habitat for anadromous salmonids and to 

promote geomorphic processes that create habitat for all in-river fish life history stages.

DCN: AFRP2126

Classification: Habitat Maintenance

Location: Clear Creek

Funding Years: 2018 - 2023

Benefits Start Year: 2018

Priority: SIT FY2020 Tech Memo:

- Maintain spawning habitat in the CVP streams

This project also addresses the legislative 3406(b)(12) priority.

Partners: CDWR, NPS, BLM, CDFW

Related Programs: NMFS-RP, NMFS-RPAs, CVPIA (b)(12), EWP

Authority

Provision Percentage

(b)(12) 100%

Metrics

Name Value Units Comment

(b)(12): Spawning 

gravel placed annually 

(tons)

12000 tons Approximate amount of gravel augmented annually, 

which will increase supply, promote alluvial processes, 

and is manageable within a season. 

(b)(12): Area of 

spawning habitat

347308 square 

feet

The long-term goal is to produce and maintain usable 

spawning habitat greater than or equal to the amount 

available pre-Whiskeytown Dam construction (347,308 

square feet above the George overlook). 

Deliverables

Deliverables in all years of this project will be coordinated with the CVPIA Data Manager, CVPIA 

Science Coordinator, and CVPIA Fish Resource Area Coordinator.

Date Title

Dec. 2020 Annual Project Completion Report

Dec. 2021 Annual Project Completion Report

Dec. 2022 Annual Project Completion Report

Project Management Team

Paul Zedonis – USBR-NCAO

Derek Rupert – USBR-NCAO
40

Charlie Chamberlain – USFWS-RBFO

Matt Brown – USFWS-RBFO

Narrative

The CVPIA (b)(12) program has a long-standing responsibility to augment gravel in Clear Creek to 

replace desirable sediment fractions blocked by the presence and operation of Whiskeytown 

Reservoir and historic gravel mining. To avoid jeopardy of ESA listed Spring-run Chinook Salmon 

(Oncorhynchus tshawytscha) and Central Valley steelhead (O. mykiss), this program is identified within 

the ESA requirements issued for continued operation of the CVP/SWP and is identified in the 

NMFS OCAP BO as RPA Action I.1.3 (NMFS 2009). The gravel program is likewise identified in 

NMFS’ Recovery Plan for these listed species (NMFS 2014). This program also benefits Clear 

Creek’s Fall- and Late Fall-run Chinook Salmon. These gravel augmentations support three SIT 

priorities: 1) maintain spawning habitat in CVP streams, 2) Increasing perennially inundated juvenile 

Chinook Salmon habitat (Sacramento River watershed upstream of the American R. confluence), 

and 3) Increase seasonally inundated juvenile Chinook Salmon habitat at 2-yr frequency (Sacramento 

River watershed upstream of the American R. confluence).

From 1996 to 2018, approximately 175,000 tons of coarse gravel have been placed into Clear Creek. 

FWS (Red Bluff) annually monitors the amount of spawning habitat for all Clear Creek runs of 

Chinook Salmon and steelhead. The project also helps to restore sediment transport processes, such 

as coarse bedload transport continuity, alternating bar riffle sequences, and sediment deposition on 

floodplain surfaces (floodplain habitat enhancement). Flow events transport gravel downstream, and 

injections of gravel help restore and maintain balance. Desirable river channel floodway processes 

are critically dependent on sediment transport and support long-term fish habitat formation and 

riparian community development. System wide gravel routing has not yet been achieved. However, 

augmented gravels are approaching gravel routing between most of the frequently used 

augmentation sites.

The Clear Creek Restoration Program (3406(b)(12) evaluates the amount of spawning habitat using 

Potential Spawning Habitat Mapping (PSAM) and Spawning Habitat Use (SHU) data collected by 

USFWS. SHU maps and quantifies all habitat actually used or disturbed during spawning in reaches 

used by Fall-run Chinook Salmon. PSAM maps and quantifies areas that meet spawning habitat 

criteria of depth, velocity, and substrate for steelhead and three runs of Chinook Salmon (Springrun, Fall-run, and Late Fall-run). Overall trends in spawning area can be detected with these 

methods as well as changes on reach and site-specific scales.

In 2018, the PSAM surveys showed record high spawning habitat in 5 of the 8 monitored gravel 

augmentation sites on Clear Creek (2010 to present; USFWS unpublished data). Both Chinook and 

steelhead spawn in augmented gravel at increasingly higher rates (USFWS unpublished data).

The Clear Creek Technical Team is exploring ways to address the needs of the Decision Support 

Model (DSM), including consideration of metrics we believe important to Clear Creek and northern 

Sacramento salmonid populations that aren’t necessarily captured in the current structure of the 

DSM.
41

In spring 2018, a subcommittee of the CCTT formed and continues to develop a new conceptual 

model, goals, reach-specific objectives, valuable metrics, and an explicit adaptive management 

framework for the augmentation program.

FY2020, FY2021, and FY2022 represents projected costs to augment up to 12,000 tons of gravel 

into Clear Creek.

Data Management

The PMT Data Steward will coordinate with external partners and biannually with the CVPIA Data 

Manager on the transmission of long-term monitoring and other pertinent data defined by the SIT 

and the PMT per the 2020 Data Guidance.

Field data will be recorded on data sheets or directly into a recording device/computer and 

transferred into a computer spreadsheet or database. The PMT Data Steward will coordinate with 

the CVPIA Data Manager on the transmission of relevant and pertinent data defined by the SIT and 

the PMT per the 2020 Data Guidance. Field data, analyses, and reports will be stored and backed up 

on a PMT computer/server.

Compliance and effectiveness monitoring for the project are conducted as part of the (b)12 Clear 

Creek Adaptive Management Monitoring Charter which funds FWS Red Bluff Office, and includes 

fishery, habitat, and geomorphic components. There are short- and long-term aspects of each of 

these components. Short-term, Objective Specific (STOS) monitoring will include repeat topological 

surveys of the gravel projects as they change over time, and documentation of spawning use during 

year-round spawning ground surveys. While the first physical and biological responses of the project 

will be detected with these methods, they are also long-running monitoring programs that inform 

Long-Term Trend monitoring (LTT). Most of our monitoring efforts are spatially explicit and 

suitable for analysis on multiple scales:

Watershed Scale: Longitudinal topographic surveys, LiDAR; bedload transport and sediment budget; 

annual adult salmonid population estimates; annual juvenile production estimates; annual juvenile 

productivity estimates (juvenile production / adult escapement); InSALMO modeled outmigrants 

per year; temperature monitoring system of loggers.

Spawning-reach Scale: Topographical change, especially estimating volumes of gravel moving in and 

out of project sites; salmonid spawning habitat suitability mapping salmonid spawning habitat use; 

redd distribution surveys; salmonid use of supplemental gravel.

Meso- and Micro-habitat Scale: Spawning gravel evaluation: sediment size; juvenile habitat use 

studies compare salmonid densities between: restored and control reaches, physical habitat 

treatments, habitat types, types or presence of riparian vegetation; macro-invertebrate studies 

comparing gravel restoration types in treated and control areas.

STOS monitoring quantitative predictions of the expected outcomes of the gravel additions include 

1) a 5% increase in PSAM in the year following gravel addition, 2) Based on previous observation 

we expect an increase of 16% Spawning Habitat Use per year following gravel mobilization, 3) The 

percent of redds in injection gravel in the upper reaches of Clear Creek increases roughly 5% per 
42

year. Note, we expect some of these relationships to be asymptotic, eventually reaching some yet-tobe-determined maximum levels.

LTT monitoring quantitative predictions include 1) an increase in PSAM to pre-dam conditions, 2) 

sustained increase in Spawning Habitat Use to a carrying capacity value which has yet to be 

determined, 3) an increase in tons per year until the system has been recharged with sediment. 4) the 

size distribution of gravel in spawning areas will converge on the size distribution preferred by 

salmonids. Another important metric for LTT monitoring is the number of juveniles produced per 

female salmonid.

The Clear Creek Technical Team has discussed metrics to study to see how our monitoring may 

help inform the DSM process. The DSM in its current state does not identify spawning gravel as a 

primary limiting factor for Chinook Salmon and steelhead in Central Valley streams. Our 

information may help support or modify this initial conclusion of the DSM. Additional factors or 

data sources we have considered following up on include gravel size specifications, outmigrants per 

year from InSALMO model, Potential Spawning Area Mapping, watershed-wide bulk sediment 

sampling, macro-invertebrate abundance and species richness and Juvenile Habitat Use.

Risks

Risk Likelihood Impact

Funding reductions 1 2

High fuel costs 2 1

Cost Estimate

Year Fund Total BOR FWS

2018 CVPRF $309,662 $309,662 $0

2019 CVPRF $315,758 $315,758 $0

2020 CVPRF $320,000 $320,000 $0

2021 CVPRF $329,600 $329,600 $0

2022 CVPRF $339,200 $339,200 $0

2023 CVPRF $349,200 $349,200 $0

2024 CVPRF $359,200 $359,200 $0

2025 CVPRF $369,200 $369,200 $0

Total Cost: $2,691,820
43

Internal Agency Resources Table

Type Name Rate Frac. MU Total Agency Fund Description

2018

Implementation

Labor Permit support $241,542 0.04 0.00 $9,662 BOR CVPRF Staff support for environmental 

compliance.

Agreement Inject up to 12,000 tons of 

gravel at various locations

$300,000 1.00 0.00 $300,000 BOR CVPRF Gravel projects towards CVPIA 

target of 25,000 tons per year

2019

Implementation

Agreement Inject up to 12,000 tons of 

gravel at various locations

$306,000 1.00 0.00 $306,000 BOR CVPRF Gravel projects towards CVPIA 

target of 25,000 tons per year

Labor Permit support $243,957 0.04 0.00 $9,758 BOR CVPRF Staff support for environmental 

compliance.

2020

Implementation

Agreement Contract - Augment up to 

12,000 tons of gravel at 

various locations

$320,000 1.00 0.00 $320,000 BOR CVPRF (b)12 gravel augmentation

2021

Implementation

Agreement Contract - Augment up to 

12,000 tons of gravel at 

various locations

$320,000 1.00 0.03 $329,600 BOR CVPRF

2022

Implementation

Agreement Contract - Augment up to 

12,000 tons of gravel at 

various locations 

$320,000 1.00 0.06 $339,200 BOR CVPRF (b)12 gravel augmentation
44

Data and Analytic Support

SIT support via data visualization & stewardship, and peer review management.

DCN: AFRP2116

Classification: Monitoring, Science Integration Team

Location: Central Valley Wide

Funding Years: 2015 - 2021

Benefits Start Year: 2015

Priority: Manage CVPIA Data Management Strategy

Partners: FWS, USBR

Related Programs: CAMP

Authority

Provision Percentage

(b)(15) CAMP 100%

Metrics

Name Value Units Comment

Peer Reviews 1 Completion On-call to compile list of peer reviewers and to 

complete peer review of 2019 Fall Run DSM and 

2020 Near Term Restoration Strategy in 

conjunction with Reclamation & USGS Science 

Integrity policies.

Data Visualization 1 metadata Visualization/Presentation of DSM output per 

USGS & Reclamation

Data Management 1 Website Organize, manage, and provide permanent 

access to all CVPIA data the contractor can get 

their hands on.

Deliverables

Deliverables in all years of this project will be coordinated with the CVPIA Data Manager, CVPIA 

Science Coordinator, and CVPIA Fish Resource Area Coordinator.

Date Title

Dec. 2017 Tech Memo Support description

Mar. 2018 Review of 2017 Technical Memorandum

Mar. 2018 Review of 2017 Fall Run DSM

Mar. 2018 Phase I - Contract Closeout Summary

Jun. 2019 Website with access to tools, data, and SIT meeting notes, as well as SIT 

related materials and meeting calendar

Dec. 2019 Annotated Outline of 2020 Near Term Restoration Strategy
45

Project Management Team

Mike Beakes – USBR-BDO – COR

Rod Wittler – USBR-CVPIA

Cesar Blanco – USFWS-CVPIA

James Peterson – USGS-OSU CRU

Mike Urkov – Flow West

Narrative

1. Visualization of DSM results - SIT support. Contractor supports SIT at the direction of the 

Science Coordinator, Science Mentor, and the Fish Resource Area Coordinator. 

Visualization includes using standard software to graph or otherwise present results of 

DSM''s and other analyses to the SIT at regular SIT meetings, SIT workshops, or packaged 

as a PDF for email distribution. Purpose of visualization is to enable SIT to interpret DSM 

output for establishing priorities.

2. Data Coordination – Coordinates all other DB’s supported by CVPIA or accessed by 

CVPIA. Contractor is aware of and coordinates all data used as input to the DSM’’s. Works 

closely with Science Mentor and Data Coordinator to maintain and provide access to data 

relevant to each of the DSMs. 

3. Data Stewardship – Manages all DSM related data and DSM versioning using R constructs. 

Contractor supports the Science Mentor and Science Coordinator by stewarding DSM 

related data. Uses principles of “Tidy Data”. Works to standardize and automate data input 

for the DSM’s. Works to interface with the CVPIA Projects GIS DB.

4. Peer Review management – procures and manages peer reviewers for CVPIA as required by 

Reclamation.

At the direction of the Science Coordinator and/or the Fish Resource Area Coordinator, Contractor 

manages peer review for the SIT and CVPIA. Management includes establishing and maintaining a 

list of qualified peer reviewers from multiple disciplines, preparing standard contract language, 

scheduling peer reviews based on requests from the Science Coordinator, Science Mentor, or Fish 

Resource Area Coordinator, procuring peer review services at industry rates, communicating with 

peer reviewers, and ensuring timely completion of peer reviews.

Data Management

The PMT Data Steward will coordinate with external partners and biannually with the CVPIA Data 

Manager on the transmission of long-term monitoring and other pertinent data defined by the SIT 

and the PMT per the 2020 Data Guidance.

Field data will be recorded on data sheets or directly into a recording device/computer and 

transferred into a computer spreadsheet or database. The PMT Data Steward will coordinate with 

the CVPIA Data Manager on the transmission of relevant and pertinent data defined by the SIT and 

the PMT per the 2020 Data Guidance. Field data, analyses, and reports will be stored and backed up 

on a PMT computer/server.
46

Contractor visualizes, coordinates, and stewards data generated by the USGS via the DSM''s.

Contractor will store all pertinent data on their own system and Reclamation will initiate efforts to 

transfer all data/meta data to a DOI system in 2020. The 3406(g) program (MP-700; Michael 

Wright) is the point of contact for maintaining the mirror of the contractor’s data.

Risks

Risk Likelihood Impact

Peer Review 2 2

Visualization 1 2

Stewardship 1 2

Cost Estimate

Year Fund Total BOR FWS

2015 CVPRF $379,547 $379,547 $0

2016 CVPRF $325,887 $325,887 $0

2017 CVPRF $323,911 $323,911 $0

2018 CVPRF $135,000 $135,000 $0

2019 CVPRF $260,000 $260,000 $0

2019 WRR $434,000 $434,000 $0

2020 CVPRF $260,000 $260,000 $0

2020 WRR $429,619 $429,619 $0

2021 CVPRF $260,000 $260,000 $0

2021 WRR $425,436 $425,436 $0

2022 CVPRF $260,000 $260,000 $0

2022 WRR $421,723 $421,723 $0

2023 CVPRF $260,000 $260,000 $0

2023 WRR $417,548 $417,548 $0

Total Cost: $4,592,671
47

Internal Agency Resources Table

Type Name Rate Frac MU Total Agency Fund Description

2015

Planning and Analysis

Agreement R12PC20254 $379,547 1.00 0.00 $379,547 BOR CVPRF Phase I contract – Year 1

2016

Planning and Analysis

Agreement R12PC20254 $325,887 1.00 0.00 $325,887 BOR CVPRF Phase I contract – Year 2

2017

Planning and Analysis

Agreement R12PC20254 $323,911 1.00 0.00 $323,911 BOR CVPRF Phase I contract – Year 3

2018

Planning and Analysis

Agreement 140R2018C0042 $135,000 1.00 0.00 $135,000 BOR CVPRF Phase I contract funded through March, 2018. 

This amount is for 2nd half of FY18 via a new 

Phase II contract. $125k contract; $10k contract 

mgmnt

Agreement 140R2018C0042 $434,000 1.00 0.00 $434,000 BOR WRR Phase II contract; $81,500 project mgmnt

2019

Planning and Analysis

Agreement 140R2018C0042 $260,000 1.00 0.00 $260,000 BOR CVPRF Phase II contract; $10k contract mgmnt.

Agreement 140R2018C0042 $429,619 1.00 0.00 $429,619 BOR WRR Phase II contract; $83,960 project mgmnt

2020

Planning and Analysis

Agreement 140R2018C0042 $260,000 1.00 0.00 $260,000 BOR CVPRF Phase II contract; $10k contract mgmnt.

Agreement 140R2018C0042 $425,436 1.00 0.00 $425,436 BOR WRR Phase II contract; $86,460 project mgmnt

2021

Planning and Analysis

Agreement 140R2018C0042 $260,000 1.00 0.00 $260,000 BOR CVPRF $250k contract; $10k contract mgmnt.

Agreement 140R2018C0042 $421,723 1.00 0.00 $421,723 BOR WRR Phase II contract; $89,120 project mgmnt
48

Type Name Rate Frac MU Total Agency Fund Description

2022

Planning and Analysis

Agreement 140R2018C0042 $260,000 1.00 0.00 $260,000 BOR CVPRF $250k contract; $10k contract mgmnt.

Agreement 140R2018C0042 $417,548 1.00 0.00 $417,548 BOR WRR Phase II contract; $91,820 project mgmnt

2023

Planning and Analysis

Agreement 140R2018C0042 $260,000 1.00 0.00 $260,000 BOR CVPRF $250k contract; $10k contract mgmnt.
49

Delta Tidal Habitat Restoration and Monitoring

This Parr Study project goal is to expand, and execute, a planned study of juvenile salmon in the 

Sacramento-San Joaquin River Delta and Suisun Bay region.

DCN: AFRP2111

Classification: Monitoring

Location: Delta, exact locations TBD, Sacramento-San Joaquin Delta

Funding Years: 2018 - 2020

Benefits Start Year: 2018

Priority: SIT FY2017 Tech Memo: Tier 1 Priority - Growth and survival of juveniles 

rearing in the Delta.

Partners: DWR, USBR

Related Programs: CDWR, CSAMP, Interagency Ecological Program, NMFS-RPAs, CDFW

Authority

Provision Percentage

(b)(15) CAMP 100%

Metrics

Name Value Units Comment

Newly connected tidal 

habitat

2500 acres

Food web contribution 0 N/A Metrics include chlorophyll and invertebrate 

abundance. 

Rearing salmonid growth 

rate

0 condition A relative weight comparison of juvenile 

salmonids to control sites. 

Deliverables

Deliverables in all years of this project will be coordinated with the CVPIA Data Manager, CVPIA 

Science Coordinator, and CVPIA Fish Resource Area Coordinator.

Date Title

Oct. 2018 EIS/EIR

Oct. 2018 Design Specifications

Oct. 2018 Annual Monitoring Report

Oct. 2019 Annual Monitoring Report

Oct. 2020 Annual Monitoring Report

Oct. 2021 Annual Monitoring Report

Project Management Team

Ian Smith – USBR-BDO
50

Josh Israel – USBR-BDO

Rod Wittler – USBR-CVPIA

Brett Harvey & James Newcomb – DWR

Jason Hasrick & Lenny Grimaldo – ICF

Anna Sturrock – UC Davis

Rachel Johnson – NMFS

Narrative

The goal of this Study is to partially address RPA Action I.6.1 of the 2009 NMFS BO which states 

the need to restore floodplain rearing habitat for salmonids in the lower Sacramento River basin. 

The U.S. Fish and Wildlife Service 2008 on the Long-term Operations of the CVP and SWP BO 

(USFWS 2008) includes an action to restore 8,000 acres of tidal habitat for the benefit of Delta 

smelt. If these 8,000 acres also provide suitable rearing habitat for salmonids, they may be used in 

partial satisfaction of the RPA Action I.6.1 (NMFS 2009). RPA Action I.6.1 calls for restoration of 

biologically appropriate durations and magnitudes. To gain better biological understanding, RPA 

Action I.6.1 requires performance goals and associated monitoring, including habitat attributes, 

juvenile metrics, and inundation depth and duration criteria. Uncertainty in the biological response 

associated with tidal wetland restoration was also identified as a significant uncertainty in the Central 

Valley Project Improvement Act (CVPIA) structure decision model efforts and new information will 

improve these models aimed to integrate project selection and monitoring into adaptive 

management. The tidal parr study (Study), headed by Brett Harvey of California Department of 

Water’s (DWR) Division Environmental Services (DES), will create methodology to address gaps in 

biological monitoring data of juvenile salmonids in the Sacramento-San Joaquin River Delta and 

Suisun Bay region for use in the CVPIA and BO monitoring and project selection efforts. The Study 

results should be useful for designing and adaptively managing higher functioning juvenile salmonid 

habitat restoration in the Sacramento-San Joaquin River Delta and associated regions.

The primary objectives of the Study are to:

1. Expand, and execute, a planned study of juvenile salmon in the Sacramento-San Joaquin 

River Delta and Suisun Bay region. The study will add additional sampling locations and 

methods with a focus on restored and soon-to-be-restored marsh location to gain better 

understanding the impact to juvenile salmonid distribution, abundance, and growth.

2. Update CVPIA SIT salmon life-cycle models and structured decision-making models with 

quantitative information from this study to assist in restoration project prioritization and 

design.

Narrative for Objective 1: To determine the timing and relative density of juvenile salmon 

occurrence at selected restored and soon-to-be-restored marsh locations, fish will be sampled with 

net gear at biweekly intervals, during the December through June salmon out-migration period, over 

three years, 2019-2021. The timing, relative density, and biometrics of juvenile salmon at these 

restoration locations will be compared to catches in other shallow water habitats, which will be 

sampled during the same period, using the same methods, as part of a simultaneously occurring 

study funded by California Proposition 1 Watershed Restoration Grant Program. Therefore, the 

Study will both capitalize upon, and augment a previously planned and fully funded study.
51

Since juvenile salmon are difficult to capture in shallow water and marsh habitats, water samples will 

be taken in parallel with net-gear sampling and analyzed for salmon environmental DNA (eDNA) as 

an indicator of salmon presence or absence. Detection ability of eDNA assays at distance from and 

time following salmon occurrence at a location will be tested using salmon in enclosures at sampling 

locations (see next paragraph). Net-gear and eDNA sampling applied in concert will provide a more 

comprehensive and nuanced evaluation of juvenile salmon presence in these habitats and will allow 

mutual validation of each technique.

Data Management

The PMT Data Steward will coordinate with external partners and biannually with the CVPIA Data 

Manager on the transmission of long-term monitoring and other pertinent data defined by the SIT 

and the PMT per the 2020 Data Guidance.

Field data will be recorded on data sheets or directly into a recording device/computer and 

transferred into a computer spreadsheet or database. The PMT Data Steward will coordinate with 

the CVPIA Data Manager on the transmission of relevant and pertinent data defined by the SIT and 

the PMT per the 2020 Data Guidance. Field data, analyses, and reports will be stored and backed up 

on a PMT computer/server.

The PMT Data Steward will coordinate with external partners and biannually with the CVPIA Data 

Manager on the transmission of long-term monitoring and other pertinent data defined by the SIT 

and the PMT per the 2020 Data Guidance.

Field data will be recorded on data sheets or directly into a recording device/computer and 

transferred into a computer spreadsheet or database. The PMT Data Steward will coordinate with 

the CVPIA Data Manager on the transmission of relevant and pertinent data defined by the SIT and 

the PMT per the 2020 Data Guidance. Field data, analyses, and reports will be stored and backed up 

on a PMT computer/server.

Central Valley salmonid monitoring programs have suffered from inconsistent and/or inadequate 

funding, limiting successful species recovery and effective use of limited resources. Successful 

adaptive management relies on accurate data provided by effective monitoring studies. This charter 

offers a funding mechanism to complete such a study evaluating Delta restoration for CV salmonids. 

Adaptive management and monitoring will provide a framework to obtain the appropriate types and 

amounts of data to evaluate the effectiveness of recovery actions and progress toward recovery.

Reclamation, with DES, will use this charter to study pervious restoration sites to record 

effectiveness of implemented action. The coordinated research/monitoring will target information 

gaps focused on:

1. Habitat- Primary and secondary production, and food web monitoring.

2. Viability- Growth rate, and condition factor of rearing salmonids.

Data will be collected and stored via EcoRestore, DWR, and Reclamation.

To determine the growth benefits afforded to juvenile salmon by restored marsh habitat, juvenile 

salmon of hatchery origin will be reared in enclosures at the fish-sampling locations during March 
52

and April of 2019-2021. Enclosure-reared fish will be assessed at biweekly intervals for changes in 

fork length, weight, stomach fullness, diet based on gut contents, and energy reserve based on liver 

weight.

Products, Milestones, Deliverables

Objective 1:

1. Monthly meetings with Reclamation’s point of contact during the planning and 

implementation phases. This component of Objective 1 & 2 is to ensure the status of the 

study relevant to the timeline provided.

2. Annual data summaries to be shared with collaborative modeling teams (i.e. CVPIA Science 

Integration Team) within 60 days of the end of the field season.

Objective 2: Data analyses and report writing will commence in July 2021, and begin with 

preliminary summary statistics, data exploration, and graphical representation comparing responses 

among sampling locations. General linear models or generalized additive models will be constructed 

to examine the relationship between response variables and location and habitat quality variables, 

including prey availability and water quality. Model selection will be performed using Akaike’s 

Information Criteria or other appropriate model selection tool.

Products

1. Semi-annual progress updates.

2. Poster or oral presentation at the 2020 and 2021 IEP workshop and the 2020 Bay-Delta 

Science conference. Final results will be reported to the public by poster or oral presentation 

at the 2022 IEP workshop and the 2022 Bay-Delta Science Conference.

3. A final report describing the trawl survey results, the eDNA survey results, and the growth 

study. These may take the form of separate manuscripts prepared for peer-reviewed journal 

submission.

Risks

Risk Likelihood Impact

DWR not able to purchase Broadmoor Island land. 1 3

Unable to obtain proper permits 1 3

Cost Estimate

Year Fund Total BOR FWS

2018 CVPRF $250,000 $250,000 $0

2019 CVPRF $250,000 $250,000 $0

2020 CVPRF $250,000 $250,000 $0

Total Cost: $750,000
53

Internal Agency Resources Table

Type Name Rate Frac. MU Total Agency Fund Description

2018

Construction

Agreement Construction and 

Maintenance; Monitoring 

and Reporting

$250,000 1.00 0.00 $250,000 BOR CVPRF $250,000 allotted for funding 

monitoring at the sites, coordinated 

through FRP and SIT.

2019

Construction

Agreement Construction and 

Maintenance; Monitoring 

and Reporting 

$250,000 1.00 0.00 $250,000 BOR CVPRF $250,000 allotted for funding 

monitoring at the sites, coordinated 

through FRP and SIT.

2020

Construction

Labor Construction and 

Maintenance; Monitoring 

and Reporting 

$250,000 1.00 0.00 $250,000 BOR CVPRF $250,000 allotted for funding 

monitoring at the sites, coordinated 

through FRP and SIT.
54

Feather River: Sunset Pumps Sturgeon and Salmon Passage

Removal of Sunset Pumps Facilities and Improvements to Sutter-Butte Main Canal

DCN: AFRP2104

Classification: Habitat Improvement, Fish Passage

Location: Feather River

Funding Years: 2019 - 2024

Benefits Start Year: 2021

Priority: SIT FY2020 Tech Memo:

- Increase access to Chinook juvenile rearing habitat in Sutter and Yolo 

Bypasses

- Improve Green Sturgeon Passage at Tisdale, Fremont Weir and Sunset 

Pumps.

Partners: NMFS, Sutter Extension Water District, CDFW, CDWR

Related Programs: CDFW, CDWR

Authority

Provision Percentage

(b)(1) 100%

Metrics

Name Value Units Comment

Habitat 28 miles Access to this habitat will be increased.

Barrier Removal 1 # improv. One barrier will be removed.

Green Sturgeon 1 # fish See explanation in narrative.

Chinook Salmon 1 # fish See explanation in narrative.

Deliverables

Deliverables in all years of this project will be coordinated with the CVPIA Data Manager, CVPIA 

Science Coordinator, and CVPIA Fish Resource Area Coordinator.

Date Title

Dec. 2020 Feasibility Study; Design Plans

Dec. 2020 Annual Reports

Dec. 2021 Permits; Monitoring Reports

Dec. 2023 Initial Construction Actions

Project Management Team

Paul Cadrett (USFWS)

Amanda Ott (CDWR)

Lynn Phillips (SEWD)
55

Colin Purdy (CDFW)

Tracy McReynolds (CDFW)

Tanya Sheya (CDFW)

Ruth Goodfield (NMFS)

Rod Wittler (USBR-CVPIA)

Narrative

This project is ongoing and directly addresses the 2020 SIT priority for green sturgeon of improve 

passage at Tisdale, Fremont Weir, and Sunset pumps.

Quantitative prediction of expected outcome: Green Sturgeon: The number of females to 

successfully spawn is expected to increase by 100% (from 4 to 8). Average female has 142,000 eggs 

so an additional 568,000 green sturgeon eggs are expected to be produced per year.

Chinook Salmon (spring- and fall-run combined): Pre-spawning mortality is expected to drop off by 

50% from the average observed from the carcass surveys (from 20% to 10%). The 10% more 

spawning from an escapement of 48,000 is 4,800 male and female salmon, or 2,400 females x ~5,000 

eggs/female = 12,000,000 additional salmon eggs are expected to be produced per year.

The Sunset Pumps dam (i.e., boulder weir) is operated by Sutter Extension Water District (SEWD) 

and spans the Feather River near Live Oak, California. It is a well-known, long-standing impediment 

to fish passage, most notably for spring-run Chinook salmon and green sturgeon. In addition to 

causing migratory delays to spring- and fall-run Chinook salmon adults and green sturgeon, acoustic 

tag data suggests that disorientation and predation near Sunset Pumps may decrease the survival of 

out-migrating juvenile Chinook salmon and steelhead. This multi-year project would entirely remove 

the Sunset Pumps facility (i.e., dam and pumps) from the Feather River, which is the best solution 

for long-term improvement of fish passage and access to 28 miles of habitat as well as overall 

ecosystem function. In exchange, the capacity of the Sutter-Butte Main Canal would be increased, 

thereby maintaining SEWD’s water supply.

Planning for this project has been ongoing since late 2014, with project management, modeling, and 

initial design and alternatives analyses facilitated or conducted by CDWR, USFWS, and SEWD staff.

CDWR has established a SharePoint site to assist with project coordination. Initial modeling tasks 

addressing both the dam removal and canal modifications have been completed. A hydraulic model 

has been developed to provide an initial evaluation of sediment volume upstream of the dam, 

identify existing and post-project channel profiles, and determine effect on upstream diversions.

Additionally, an analysis completed by GEI Consultants (contracted by SEWD) has conceptual-level 

recommendations that involve improving approximately 7.4 miles of canal. CVPIA funds are 

especially needed to complete planning, design, and permitting, and initiate monitoring and 

preliminary construction actions. Most of the construction and implementation costs are expected to 

be funded through large matching grants from the California Department of Fish and Wildlife 

Proposition 1 Restoration Fund and the Northern Sacramento Valley Integrated Regional Water 

Management Plan, which require significant matching funds and also that projects are 'shovel-ready' 

with designs and permits in hand. Implementation funding is also being pursued through the DWR 

Agricultural Water Use Efficiency, DWR IRWM, and DWR Water-Energy grant programs.
56

The project addresses AFRP Final Restoration Plan/CPAR evaluation E5, 'Identify and remove 

physical and water quality barriers that impede access for white sturgeon and green sturgeon to 

spawning habitat or facilitate passage around these barriers' and Working Paper (V. 3) limiting factor 

3 for sturgeon in the Feather River, 'Barriers that prevent or slow the migration of sturgeon to 

spawning habitat.' The project is supported by NMFS’s 2014 recovery plan for Central Valley 

salmonids, specifically Recovery Action FER-2.13, 'Modify Sunset Pumps to provide unimpeded 

upstream passage of adult steelhead and Chinook salmon (and sturgeon) and to minimize predation 

of juveniles moving downstream.'

Data Management

The PMT Data Steward will coordinate with external partners and biannually with the CVPIA Data 

Manager on the transmission of long-term monitoring and other pertinent data defined by the SIT 

and the PMT per the 2020 Data Guidance.

Field data will be recorded on data sheets or directly into a recording device/computer and 

transferred into a computer spreadsheet or database. The PMT Data Steward will coordinate with 

the CVPIA Data Manager on the transmission of relevant and pertinent data defined by the SIT and 

the PMT per the 2020 Data Guidance. Field data, analyses, and reports will be stored and backed up 

on a PMT computer/server.

Short-term monitoring will include as-built surveys (depth and water velocity) of the river channel 

following facility and weir removal. Pre- (and post-) project monitoring of juvenile salmonids would 

occur using acoustic tagging as part of this project, with the objective of quantifying changes in 

survival of outmigrants through the Sunset Pumps reach before and after facility removal. Shortand long-term monitoring also will be addressed through CDWR’s existing fisheries monitoring 

program, which includes adult sturgeon tagging and tracking, roving surveys done with ARIS 

cameras, larval surveys, and egg mat studies; Chinook salmon carcass surveys; steelhead redd 

surveys; and rotary screw trapping of juvenile salmonid outmigrants. Sampling sites located 

upstream and downstream of Sunset Pumps are included in many of these surveys. The objective 

would be to quantify changes in the proportion and timing of adult migration and spawning in the 

reaches above Sunset Pumps. Chinook salmon and steelhead timing and return rates to the Feather 

River Hatchery also are tracked and could be used to assess the effectiveness of this project. The 

RSTs could be used to detect changes in juvenile production.

Risks

Risk Likelihood Impact

This project has a high likelihood of successful implementation 

(overall low risk) because multiple agencies, local water districts, 

and the facility owner (SEWD) support it. The project 

management team includes project managers Mark Gard 

(USFWS), Amanda Ott (CDWR), and Lynn Phillips (SEWD); and 

technical experts Mark Gard (USFWS), Colin Purdy (CDFW), Tracy 

McReynolds (CDFW), Tanya Sheya (CDFW), and Ruth Goodfield 

(NMFS).

1 1
57

Risk Likelihood Impact

Full implementation will cost about $21M and is expected to be 

funded through CDFW Prop 1 funds, the Northern Central Valley 

IRWMP, or the DWR Agricultural Water Use Efficiency, DWR 

IRWM, and DWR Water-Energy grant programs. Probability of 

funding is high (i.e., risk is low) because with the initial CVPIA 

funding, cost share and 'shovel-ready' requirements of these 

programs will be met.

1 1

The project has a high cost, necessitating phased implementation.

Potential adverse impacts related to e.g. flood control or 

sediment transport are expected to be minimal, and modeling 

should allow adjustment to the design or phasing of 

implementation to accommodate any concerns and result in 

overall low risk.

1 1

Cost Estimate

Year Fund Total BOR FWS DWR

2019 CVPRF $2,138,000 $0 $2,138,000 $0

2019 SIK $95,000 $0 $0 $95,000

20204 CVPRF $0 $0 $0 $0

2020 SIK $95,000 $0 $0 $95,000

2021 CVPRF $957,200 $0 $957,200 $0

2021 SIK $95,000 $0 $0 $95,000

2022 SIK - (Prop 1) $6,000,000 $0 $0 $6,000,000

2023 SIK - (Prop 1) $6,000,000 $0 $0 $6,000,000

2024 SIK - (Prop 1) $6,000,000 $0 $0 $6,000,000

Total Cost: $21,380,200

4 The FY2019 funding amount of $2,138,000 included $957,200, which was the FY2020 allocated funding for this 

project.
58

Internal Agency Resources Table

Type Name Rate Frac MU Total Agency Fund Description

2019

Design

Agreement New agreement, if 

funded, Agreement # 

TBD

$1,053,600 1.00 0.06 $1,054,800 FWS CVPRF Feasibility study/alternatives assessment/

draft and final designs for both removing the 

Sunset Pumps facility from the Feather River 

and modifying the Sutter-Butte Main Canal.

Management

Agreement New agreement, if 

funded, Agreement # 

TBD

$40,000 1.00 0.06 $41,200 FWS CVPRF Supplemental project management funds.

In-Kind Labor Feather River Sunset 

Pumps Sturgeon and 

Salmon Fish Passage

$50,000 1.00 0.00 $50,000 DWR SIK CDWR will provide funding to support 

project management and website services.

Environmental 

Compliance 

and Permitting

Agreement New agreement# TBD, if 

funded

$830,000 1.00 0.06 $830,000 FWS CVPRF Environmental compliance (CEQA, NEPA, etc.) 

and permitting for removal of the existing 

facilities and improvements to the SutterButte Main Canal.

Monitoring

Agreement New agreement, if 

funded, Agreement # 

TBD

$200,000 1.00 0.06 $212,000 FWS CVPRF Pre-project fish monitoring (acoustic tags 

and receivers).

In-Kind Labor Feather River Sunset 

Pumps Sturgeon and 

Salmon Fish Passage

$45,000 1.00 0.00 $45,000 DWR SIK CDWR pre-project fish monitoring--staff, 

boats, etc.
59

Type Name Rate Frac MU Total Agency Fund Description

2020

Management

In-Kind Labor Feather River Sunset 

Pumps Sturgeon and 

Salmon Fish Passage

$50,000 1.00 0.00 $50,000 DWR SIK CDWR will provide funding to support 

project management and website services.

Monitoring

In-Kind Labor Feather River Sunset 

Pumps Sturgeon and 

Salmon Fish Passage

$45,000 1.00 0.00 $45,000 DWR SIK CDWR pre-project fish monitoring--staff, 

boats, etc.

2021

Construction

Agreement New agreement# TBD, if 

funded

$500,000 1.00 0.06 $530,000 FWS CVPRF Start of initial modifications to Sutter-Butte 

Main Canal.

Design

Agreement New agreement# TBD, if 

funded

$283,019 1.00 0.06 $300,000 FWS CVPRF Feasibility study/alternatives 

assessment/draft and final designs for both 

removing the existing facility and modifying 

the Sutter-Butte Main Canal. 

Management

In-Kind Labor Feather River Sunset 

Pumps Sturgeon and 

Salmon Fish Passage

$50,000 1.00 0.00 $50,000 DWR SIK CDWR will provide funding to support 

project management and website services.

Agreement New agreement# TBD, if 

funded

$20,000 1.00 0.06 $21,200 FWS CVPRF Supplemental project management funds.

Monitoring

Agreement New agreement# TBD, if 

funded

$100,000 1.00 0.06 $106,000 FWS CVPRF Pre-project fish monitoring (acoustic tags 

and receivers).

In-Kind Labor Feather River Sunset 

Pumps Sturgeon and 

Salmon Fish Passage

$45,000 1.00 0.00 $45,000 DWR SIK CDWR pre-project fish monitoring--staff, 

boats, etc.
60

Type Name Rate Frac MU Total Agency Fund Description

2022

Construction

Agreement 

(Prop 1)

New agreement# TBD, if 

funded

$6,000,000 1.00 0.00 $6,000,000 DWR SIK Construction of preferred alternative

2023

Construction

Agreement

(Prop 1)

New agreement# TBD, if 

funded

$6,000,000 1.00 0.00 $6,000,000 DWR SIK Construction of preferred alternative

2024

Construction

Agreement

(Prop 1)

New agreement# TBD, if 

funded

$6,000,000 1.00 0.00 $6,000,000 DWR SIK Construction of preferred alternative
61

Green Sturgeon Juvenile Investigation

Green Sturgeon Juvenile Rearing Habitat Investigation

DCN: AFRP2118

Classification: Research, Monitoring, Modeling

Location: Upper Sacramento River Mainstem

Funding Years: 2018 - 2021

Benefits Start Year: 2019

Priority: This project supplies the SIT with data for the Sturgeon DSM per Table 17 

of the SIT FY2020 Tech Memo.

Partners: NMFS, USACE, USBR

Related Programs: CVPIA (b)(1), NMFS, NMFS-RPA

Authority

Provision Percentage

3406(g) 100%

Metrics

Name Value Units Comment

Habitat Assessment 160 miles Determine, in given water year, number of linear river 

miles of the Sacramento River utilized as rearing habitat 

for Green Sturgeon juveniles based on temperature and 

flow operations from Shasta/Keswick dams under in situ 

annual temperature management plan.

Deliverables

Deliverables in all years of this project will be coordinated with the CVPIA Data Manager, CVPIA 

Science Coordinator, and CVPIA Fish Resource Area Coordinator.

Date Title

Sep. 2019 Annual Report

Sep. 2020 Annual Report

Project Management Team

Josh Gruber – USFWS-RBFO

Matt Brown – USFWS-RBFO

Bill Poytress – USFWS-RBFO

Derek Rupert – USBR-NCAO
62

Narrative

Sacramento River flow and temperature management influences the quantity and quality of sturgeon 

juvenile rearing habitat in the Sacramento River. This information is critical input to the CVPIA SIT 

Green Sturgeon DSM effort. This project corresponds with the FY 2020 SIT Core Team specific 

priority for Green Sturgeon of “adaptively managing flows, habitats, and/or temperature to increase 

juvenile recruitment”. The information derived from this project will assist in adaptively managing 

annual temperature management plans for Shasta/CVPIA water resources with respect to the 

biological needs of winter-run Chinook Salmon (NMFS 2009 OCAP BO RPA) and Green Sturgeon. 

The project is collaborative in-nature and in execution and evaluates multiple listed species.

Sacramento River flow and temperature management influences the quantity and quality of sturgeon 

juvenile rearing habitat in the Sacramento River. This information is critical input to the CVPIA SIT 

Green Sturgeon DSM effort. This project corresponds with the FY 2020 SIT Core Team specific 

priority for Green Sturgeon of “adaptively managing flows, habitats, and/or temperature to increase 

juvenile recruitment”. The information derived from this project will assist in adaptively managing 

annual temperature management plans for Shasta/CVPIA water resources with respect to the 

biological needs of winter-run Chinook Salmon (NMFS 2009 OCAP BO RPA) and Green Sturgeon. 

The project is collaborative in-nature and in execution and evaluates multiple listed species.

The effects of flow and temperature management operations of the Central Valley Project, most 

directly Shasta and Keswick dams, are currently biologically focused at conserving Endangered 

winter-run Chinook salmon. Current water resource management operations have impacts to 

Threatened Green Sturgeon who cohabitate in the upper Sacramento River temporally and spatially 

during their spawning and juvenile rearing periods. The water temperature needs for salmon 

spawning, egg incubation and hatching are generally lower than for Green Sturgeon. We hypothesize 

that, dependent upon annual water year type and resultant storage capacity, temperature and flow 

management for winter Chinook may result in benefits or negative impacts to the quantity and 

quality of spawning and rearing habitat of Green Sturgeon in the Sacramento River. A recent 

publication by Hamda et al. (2019) has modeled the impacts of temperature management for winterrun on Green Sturgeon. Data from this project will be used to validate modeling results and either 

support or allow for recalibration on model parameters. Our working hypothesis is therefore as 

follows:

Ho = Water resource management (via flow and temperature manipulation) focused on 

winter-run Chinook salmon has no effect on the quantity of Green Sturgeon spawning 

and/or juvenile rearing habitat.

Ha = Water resource management (via flow and temperature manipulation) focused on 

winter-run Chinook salmon does affect the quantity of Green Sturgeon spawning and/or 

juvenile rearing habitat.

Funding of this Charter in FY2020 and beyond would continue and expand upon work already 

funded and in progress to allow greater assessment via quantification of juvenile rearing habitat in 

terms of linear miles of the Sacramento River based on physical data collection efforts (e.g., flow and 

temperature monitoring coupled with juvenile habitat occupancy using telemetry). Quantification of 

juvenile sturgeon rearing habitat has been noted as a significant data gap in the SIT team Decision 

Support Model that is currently being developed for Green Sturgeon. This project fits well within 
63

the multiple CVPIA SIT FY2020 monitoring priorities of evaluating juvenile sturgeon habitat use, 

fish routing and the effect of temperature and flow operations of CVP facilities on this species as 

well as winter-run (multi-species benefits).

NMFS (2015) 5-Year Review of the Southern Distinct Population Segment of the North American 

Green Sturgeon indicated the juvenile life-history stage is one of the least understand phases of this 

species. Efforts to learn about how annual Sacramento River flow and temperature management 

(i.e., annual temperature management plan) affect the quantity and quality of juvenile rearing habitat 

in the Sacramento River are greatly desired by NMFS, USFWS, and USBR. Without this research, it 

is impossible to evaluate the potential effects of flow and temperature management (e.g., for winterrun Chinook salmon) and diversion operations on the availability of rearing habitat for Green 

Sturgeon.

This research could allow for assessment of potential habitat restoration efforts to directly benefit 

Green Sturgeon and potentially optimize water resource allocation for winter Chinook in an 

adaptive management framework. This research could result in having the required baseline 

information to make progress toward achieving the CVPIA doubling goal for this species. This 

would occur by knowing what habitat exists and is utilized by Green Sturgeon and how other rivers 

(e.g., the Feather or Yuba) may or may not have similar habitat which could then be used to 

determine feasibility of various restoration actions (e.g., flow/temp management strategies or habitat 

restoration activities) to achieve greater population numbers. This work could also aid in filling data 

gaps required to assist with Recovery or delisting of Green Sturgeon from the Endangered Species 

Act.

Data Management

The PMT Data Steward will coordinate with external partners and biannually with the CVPIA Data 

Manager on the transmission of long-term monitoring and other pertinent data defined by the SIT 

and the PMT per the 2020 Data Guidance.

Field data will be recorded on data sheets or directly into a recording device/computer and

transferred into a computer spreadsheet or database. The PMT Data Steward will coordinate with 

the CVPIA Data Manager on the transmission of relevant and pertinent data defined by the SIT and 

the PMT per the 2020 Data Guidance. Field data, analyses, and reports will be stored and backed up 

on a PMT computer/server.

Data produced by this project will be used in the development of a sub-module of the Science 

Integration Team’s Salmon Decision Support Model(s). The Project Management Team Leader will 

coordinate with the CVPIA Science Coordinator on the development and submission of a SIT DSM 

Modification Proposal (Using the standard proposal template), as well as ensure progress on 

completing the sub-module in cooperation with the Science Integration Team.

Telemetry and physical habitat data (temp. flow, velocity, depth, and substrate composition) 

generated by this project will be coordinated with USACE modeling staff to produce habitat use 

models. Information developed by this charter will be stored at the USFWS Red Bluff Fish & 

Wildlife Office and reports posted to the office website: http://www.fws.gov/redbluff/
64

Risks

Risk Likelihood Impact

Attaining research permits 1 1

Cost Estimate

Year Fund Total BOR FWS

2018 CVPRF $147,832 0 $147,832

2019 CVPRF $348,645 $0 $348,645

20205 CVPRF $0 $0 $

2021 CVPRF $177,033 $0 $177,033

Total Cost: $673,510

5 The FY2019 funding amount of $348,645 included $174,823, which was the FY2020 allocated funding for this project.
65

Internal Agency Resources Table

Type Name Rate Frac. MU Total Agency Fund Description

2018

Research

Equipment or 

Materials

Equipment and Materials 

to support data gathering 

and analysis

$48,800 1.00 0.0 $48,800 FWS CVPRF Field equipment and additional 

support materials

Labor RBFWO Biologist or 

Technicians

$241,542 0.41 0.0 $99,032 FWS CVPRF Based on RBFWO estimated 

FY16 FTE rate. Will consist of 

small portions of time from 

multiple RBFWO staff

2019

Research

Equipment or 

Materials

Equipment and Materials 

to support data gathering 

and analysis

$59,389 1.00 0.22 $72,455 FWS CVPRF Field equipment and additional 

support materials

Labor RBFWO Biologist or 

Technicians

$251,781 0.33 0.22 $101,367 FWS CVPRF Based on RBFWO estimated 

FY16 FTE rate. Will consist of 

small portions of time from 

multiple RBFWO staff

Research

Equipment or 

Materials

Field equipment and 

support materials

$50,594 1.00 0.22 $61,725 FWS CVPRF Equipment and supplies for 

data gathering and analyses.

Labor RBFWO Biologists and 

Technicians

$243,957 0.38 0.22 $113,098 FWS CVPRF Staff costs associated with data 

collection and analyses.

2021

Research

Equipment or 

Materials

Field equipment and 

support materials

$49,288 1.00 0.22 $60,131 FWS CVPRF Equipment and supplies for 

data gathering and analyses

Labor RBFWO Biologists and 

Technicians

$243,957 0.42 0.22 $125,004 FWS CVPRF Staff costs associated with data 

collection and analyses
66

Growing Fish Food: Reintegrating Floodplain Food Web 

Productivity into the River Aquatic Ecosystem

This proposal outlines coordinated science and management approach to re-integrate agricultural 

floodplain productivity into river ecosystems. The project boosts aquatic food webs and support 

recovery of abundant fish populations by subsidizing the food-poor river ecosystem with highly 

productive floodplain-derived food web resources grown in intentionally inundated winter rice 

fields, thereby improving juvenile salmonid foraging success in non-natal rearing habitats. Data 

produced by these actions will be used in the development of a food web and fish growth rate submodule of the Science Integration Team’s Salmon Decision Support Model.

DCN: AFRP2134

Classification: Research; Monitoring, Modeling

Location: Sacramento River, Sacramento Lower Mainstem

Funding Years: 2019 - 2021

Benefits Start Year: 2020

Priorities: SIT FY2018 Tech Memo: Create/improve juvenile rearing habitat in nonnataltributaries; Sacramento Mainstem, Improve/increase juvenile

Chinook rearing habitat; Sacramento River below Red Bluff, increase 

juvenile rearing habitat

SIT FY2020 Tech Memo: Adaptively manage juvenile habitat restoration to 

allow the evaluation of the effect of habitat restoration on wild juvenile 

Chinook Salmon survival in the Sacramento River

Partners: California Trout, River Garden Farms, RD 108, Northern California 

Water Association, UC Davis Center for Watershed sciences, San Luis & 

Delta-Mendota Water Authority, CVPIA, California Rice Commission, 

Trout Unlimited.

Related Programs: CVPIA, NMFS-RPAs

Authority

Provision Percentage Comment

3406 (g) 100% DSM Sub-module

Project Management Team

Project Leader Jacob Katz – CalTrout

Project Administration Ian Smith–USBR, Jayme Ohlhaver, CalTrout

Science Coordinator Jacob Montgomery - CalTrout

Data Steward Jacob Montgomery - CalTrout

Field and Inundation logistics Lewis Bair–Reclamation District No 108, Roger Cornwell – River 

Garden Farms, Brad Matson, Sutter Mutual Water Company/RD 

1500
67

Technical Advisors David Guy– NCWA, Rod Wittler & Josh Israel–USBR, Cesar 

Blanco–USFWS, Paul Butner–CRC, Jon Rubin–Westlands, Griffin 

Hill–SLDMWA, Ted Sommer & Kris Tjernell–DWR, Brian Ellrott 

–NMFS, Jeff McCreary–DU, Collin Purdy–CDFW, Carson Jeffres, 

Andrew Ryppel–UC Davis, Alison Collins– MWD, Chuck 

Hanson–SWC

Metrics

Name Value Units Comment

Water diverted to 

managed floodplains

40,000 Acre-feet Determined by each District’s water rights 

permit. 

Managed floodplain 

duration

1,200,000 Wettedacre/daysMeasure of the residence time that floodplain 

area enrolled in the program remains inundated 

and actively producing food web resources. 

Food web contribution 330 Grams Dry 

Carbon 

Zooplankton/ 

Acre foot of 

floodplain water 

exported 

Volume floodplain water exported (AF) * 

zooplankton biomass density (grams dry carbon) 

= trophic subsidy delivered to augment in-river 

food webs.

Integration, 

coordination and 

transfer of data to 

CVPIA

N/A Project data steward will meet with CVPIA data 

manager and coordinate the transfer of data 

to the SIT in compliance with Data Guidance.

Sub-module of the 

Decision Support 

Model

N/A Develop a sub-module of the SIT Decision 

Support Model that calculates habitat-specific 

fish growth rates based on access to aquatic 

food web resources. 

Deliverables

Deliverables in years 1, 2 & 3 of this project will be coordinated with the CVPIA Data Manager, 

CVPIA Science Coordinator, and CVPIA Fish Resource Area Coordinator.

Date Title

Year 1: FY 2019

Dec. 2019 Estimates of food web resources (Zooplankton, phytoplankton and 

nutrients) delivered to river ecosystem to benefit juvenile fish to the SIT 

from 2018/19 field season.

Dec. 2019 Annual technical documentation report describing monitoring results for

the flood up-drain event(s). 

Dec. 2019 Proposal to SIT for incorporation of results into DSM.

Year 2-3: FY 2020-2021
68

June 2020 Estimates of food web resources (Zooplankton, phytoplankton and 

nutrients) delivered to river ecosystem to benefit juvenile fish to the SIT 

from 2019/20 field season

Oct 2020 Poster or presentation at Delta Science Conference.

Dec 2020 Annual technical documentation report describing monitoring results for

the flood up-drain event(s). 

Dec 2020 Initial version of DSM sub-module.

June 2021 Estimates of food web resources (Zooplankton, phytoplankton and 

nutrients) delivered to river ecosystem to benefit juvenile fish to the SIT 

from 2020/21 field season

Dec 2021 Annual technical documentation report describing monitoring results for

the flood up-drain event(s).

Dec 2021 Manuscript submitted for peer review and publication in the open scientific 

literature

Dec 2021 Finalization of the sub-module for the Decision Support Model

Narrative

Conceptual model:

1. Extremely high rates of invertebrate production relevant for rearing juvenile salmonids are

generated in seasonally hydrologically-activated floodplains with relatively long-duration 

water residence times.

2. The Central Valley floodplains have been extensively re-contoured for efficient, rapid 

drainage with 95% of Central Valley floodplains converted to other uses, primarily to 

agriculture, and hydrologically divorced from fish bearing stream channels by levees.

3. Hydrologic isolation of river channel from floodplains has turned rivers into food-scarce 

environments detrimentally affecting native fish populations and abundance.

4. Hydrologically reconnecting managed agricultural floodplains with river channels will 

augment in-river food web resources to the benefit of juvenile salmonids and other

native fishes where these resources enter the Sacramento River (i.e., greatly improve 

habitat quality -foraging success- in non-natal rearing habitats)

Hundreds of thousands of acres of rice ground in the Sacramento Valley are flooded in fall and 

early winter to aid in rice stubble decomposition (decomp). While these fields are inundated, 

they produce physical conditions similar to the natural floodplain wetlands which once 

produced the food resources that supported the Sacramento Valley's pre-development 

populations of waterfowl and native fish. Under current agricultural practices, very little 

decomp water containing floodplain-derived "fish food" resources drains back to the river. 

However, if management practices are altered to actively drain floodplain waters back to the 

river there is potential to export these critically important floodplain-derived food web 

resources to the river where they may augment the aquatic ecosystem's depleted food webs and 

help recover endangered fish populations.

Year 1 (2018/2019) of this project pilots this action on 6,500 acres of farmland owned by a single 

Reclamation District – RD 108. Growth benefits for juvenile salmonids caged in the river at the 

outfall location of pumped floodplain waters will be experimentally determined. The project will 
69

attempt three flood and drainage cycles but the number of flood-drain cycles will be dependent 

on river flows, water diversion restrictions and pumping capabilities of RD 108.

Years 2 and 3 builds on this effort by expanding this practice both in geographic space and 

(expanding to Sutter Mutual and other water districts) and by refining practices which facilitate 

multiple flood-drain cycles per season. Increasing the number of locations and the frequency of 

connection between “dry-side” managed floodplain resources and “wet-side” rearing fish 

populations will improve habitat quality and foraging success of juvenile salmonids in non-natal 

rearing habitats. Data collected from multiple years of landscape scale inundation actions will be 

compiled and shared with the Science Integration Team to inform and develop a sub-module of the 

Decision Support Tool.

This research is coordinating with these on-going research projects:

Development of baseline data for fish growth and lower trophic production on the 

Sutter Bypass

– Research conducted by the University of California Santa Cruz, the National Oceanic and 

Atmospheric Administration, National Marine Fisheries Service, Southwest Fisheries Science 

Center, University of California Davis, Center for Watershed Sciences Watershed Sciences. 

Project funding from the State Water Contractors and California Department of Water 

Resources. The purpose of this project was to quantify the growth benefits of the Butte Sink 

and Sutter Bypass, compared to adjacent main river channel habitats, for Butte Creek juvenile 

Chinook Salmon and other CCV Chinook Salmon populations that could potentially access the 

floodplain.

Paired Salmon Release Study and Agriculture Practice Standard Development Project –

CalTrout is a science partner in this California Rice Commission lead, and NRCS funded 

project which is developing management practices for the rearing of salmon in “wet side” 

agricultural floodplains located within the flood bypass system. While the Fish Food project 

focuses on augmenting food web resources derived from managed inundation of farm fields 

and wetland habitats on the “dry side” of the levees into the river ecosystem where fish can 

access managed floodplain habitat.

Schedule

Oct – Dec 2018: Initiate coordination with the Science Integration Team and begin transfer of 

existing data to CVPIA Chinook Salmon Coarse Resolution Model and other Decision Support 

Tools will begin in September 2018 and continue for length of the contract.

Oct 2018 – May 2019: Field work, research, data collection and monitoring for pilot year. Due to the 

seasonal nature of floodplain research–which can only be conducted during the wet season when 

rivers rise and inundate floodplains, water is available for diversion, temperatures are within the 

thermal tolerances of salmon, and salmon are migrating through the Sacramento River corridor–

fieldwork for this project must take place between Nov 1, and March 30th. Substantial preparation 

such as experimental design, grower outreach and flood and drainage coordination and installation 

of instrumentation is necessary in advance of field work.
70

June – Dec 2019: Monitoring sample processing, data analysis and coordination with the Science 

Integration Team and annual report preparation. Experimental design for next field season 

commences in June.

Oct 2019 – May 2020: Field work, research, data collection and monitoring for Year 2. Multiple 

inundation/drain cycles with RD 108, pilot-test with an additional district. Floodplain Lab 

experiments.

June – Dec 2020: Monitoring sample processing, data analysis, coordination with the Science 

Integration Team and annual report preparation. Experimental design for next field season 

commences in June.

Oct 2020 – May 2021: Field work, research, data collection and monitoring for Year 3. Multiple 

inundation/drain cycles with RD 108, large single cycle with an additional district. Floodplain Lab 

experiments. Coordination with the Science Integration Team and annual/final report preparation.

June – Dec 2021 - Monitoring sample processing, data analysis, coordination with the Science 

Integration Team and annual/final report preparation.

Year 1 – Pilot Year - (Oct 2018- Dec 2019)

During Year 1 this project will pilot the inundation of approximately 6,500 acres of rice fields 

between October and March. Fields will be actively drained directly to the Sacramento River 

through the Rough and Ready pumping plant. The Rough and Ready pumping facility has several 

levels of water export pumping capacity. For baseline conditions, a single 80cfs pump can be used. 

And during flood conditions or for higher discharge rates, the facility has 3 x 210cfs pumps. All 

these pumps can be run individually or together in various combinations for a range of export 

discharge rates of 80-720cfs. 5,000 acre-feet of agricultural floodplain water can be drained in 3-20 

days, depending on water stages on the floodplain and in the river. River diversions will occur at 

the screened Wilkins Slough and Emery Poundstone pumping plants equipped with state ofthe-art positive barrier fish screens and will be used for all diversions to ensure that no 

salmonids or other fish are entrained into the diversion and discharged into the flooded rice 

fields. The project will attempt three flood and drainage cycles but the number of flood-drain 

cycles is dependent on river flows, water diversion restrictions and pumping capabilities of RD 

108.

Data will be collected on water quality, zooplankton density, and juvenile Chinook salmon 

growth rate at regular intervals during each flooding cycle. Temperature and dissolved oxygen 

data loggers recording at 15-minute intervals will be deployed and downloaded throughout the 

sampling period. Conductivity will be measured using a portable EC meter. Baseline river 

zooplankton density will be determined by sampling in the Sacramento River upstream of the 

floodplain drainage point source. Drainage water will be sampled at the Rough and Ready pump 

directly before it enters the river. Effected river samples will be taken at the point of discharge and 

at two sites downstream of the initial sample. In order to directly measure habitat specific growth 

rates, measure the effect of agricultural floodplain water export on fish growth and to compare 

growth rates of fish experiencing natural river conditions to those experiencing fish foodaugmented conditions, hatchery-origin juvenile Chinook salmon will be confined in enclosures 

upstream and downstream of the Rough and Ready pumping station. Each site will have three 
71

cages each containing 10 hatchery-origin juvenile fall run Chinook salmon. Every fish will be PIT 

tagged. Fish length, weight, and body condition will be recorded weekly. Flow through the Rough 

and Ready pumping station will be recorded by RD 108 and used, in conjunction with physical 

and biological metrics, to determine total food web subsidy to the river by this management 

action.

Years 2 and 3 (Jan 2020- Dec 2021)

In Years 2 and 3, the project will work to use lessons learned from the pilot year to grow the 

number of acres inundated, the number of reclamation districts (districts) participating and 

refine management practices to facilitate conducting multiple flood/drain cycles per season.

In Year 2 the project will work to conduct three flood/drain cycles on at least 5,000 acres at RD 

108 for a total 15,000 inundated acres drained. We will also begin work with Sutter Mutual 

Water district. In Year 3, the project plans to continue three flood/drain cycles on at least 5,000 

acres at RD 108 as well as 5,000 at Sutter Mutual or another district for a total of 20,000 

inundated acres drained in year 3. At the conclusion of Year 3, the project seeks to have drained 

approximately 40,000 acres of intentionally inundated floodplain to the Sacramento River. 

exporting. An estimated 330 grams of dry zooplankton carbon is exported to the river food 

web per acre foot of floodplain water pumped into the River.

Other Districts in the Sacramento Valley with existing managed agricultural floodplains include 

but are not limited to RD 70, RD 1660, RD 1000, RD 1001, RD 2047 among others. Pending 

water rights limitations, infrastructure constraints and unforeseen management impediments, 

each year the project will increase the number of locations of fish food delivery, the frequency 

of fish food deliveries throughout the outmigration/rearing season, and the total volume of fish 

food deliveries to the lower Sacramento River system to increase fish foraging success, growth 

rate, and survival.

Representative managed wetlands within each participating District, along with a longitudinal 

transect of river sites bracketing floodplain fish food export point sources will be monitored 

weekly throughout the field season. Water temperature, conductivity, dissolved oxygen, pH, 

turbidity, chlorophyll-a concentration, weather, biogeochemical constituent (e.g., nitrogen, 

phosphorus, and dissolved carbon), and zooplankton community assemblage and abundance 

data will be collected and recorded weekly throughout the field season. Temperature and 

dissolved oxygen loggers will be deployed at each District’s fish food delivery point source, 

collecting data at 15-minute intervals throughout the field season. Biogeochemical samples will 

be subcontracted out for analysis (e.g., EcoAnalysts, Inc.). Zooplankton sample analysis will be 

conducted after the field season at the UC Davis Center for Watershed Sciences. Hatchery -

origin juvenile Chinook salmon will be caged in the river upstream and downstream of fish 

food export point sources to compare baseline and managed agricultural floodplain-augmented 

fish diets and growth rates. Wild fish will also be sampled weekly upstream and downstream of 

fish food export point sources during export management actions to confirm wild fish use of 

these resources.

Concurrently, a managed floodplain laboratory will be constructed at River Garden Farms in 

Knights Landing, CA and will be used to scientifically investigate drivers, mechanisms, and 

outcomes of managed floodplain fish food production through controlled, replicated 

experiments. Specific topics to be studied include but are not limited to: effects of water 
72

residence time on zooplankton density, effects of fish food export practices on waterfowl and 

shorebird populations, effects of fish presence on managed floodplain methane efflux.

Integration with Related Long-Term Monitoring Programs

This project will assist in the integration of monitoring efforts among the major entities devoted 

to winter and spring salmon population monitoring and conservation and collaborate with the 

Science Integration team to use compiled data to develop a sub-module in the Decision 

Support Model. Traditionally salmonid populations have been monitored by state and federal 

agencies with screw traps along the outmigration corridor. As rearing habitat and food 

availability increasingly become incorporated into the suite of conservation management 

strategies, a more comprehensive monitoring program is required. UC Davis researchers at the 

Center for Watershed Sciences the Department of Water Resources and California Rice 

Commission have already begun to sample rearing habitat in the Butte Sink and the Yolo and 

Sutter Bypasses when they are flooded. We will incorporate water quality, zooplankton, and 

wild fish sampling data into their reporting schema to create a centralized location for data 

storage and transparency. Additionally, baseline data before major conservation actions to 

improve access to rearing habitat are enacted will be critical for determining salmon population 

response to those conservation actions.

In Years 2 and 3, the project will continue to monitor the three major confluences of floodplain 

drainage and the lower Sacramento River. Major confluences include, but are not limited to the 

Colusa Drain, lower Butte Creek in Sutter Bypass, and Auburn Ravine Cross Canal. Each 

location will be monitored weekly for water quality and zooplankton density in similar transect 

experimental design used in Year 1. Baseline river zooplankton density will be determined by 

sampling in the Sacramento River upstream of the floodplain confluence. Floodplain water will 

be sampled directly before it enters the river. River samples will be taken at the confluence and 

at least one site downstream of the initial sample.

Representative floodplain farm fields and/or wetlands within each floodplain foodshed will also 

be monitored weekly throughout the winter-spring wet season. These sites were established in 

2016 and continuous monitoring will generate the long-term data set needed to assess baseline 

conditions from which to gauge the magnitude of ecosystem response after restoration and 

management actions. Additional “foodshed” confluences of interest may expand to include the 

Butte Slough Outfall Gates and various Reclamation District discharge locations.

CalTrout’s Data Steward will coordinate with external partners and the CVPIA Data Manager 

on the transmission of long-term monitoring, fish food export and other pertinent data defined 

by the SIT and the PMT per the new Data Guidance.

CVPIA Objectives: The project may contribute to improved growth rates and survival of 

salmonids and other native fish populations rearing in the Sacramento River through improved 

food web productivity and increased availability and density of food web resources.

This project will divert winter river flows to create inundated wetland habitat and facilitate 

productive floodplain food webs that can then be discharged into the Sacramento River where 

they will then be available for consumption by juvenile salmonids and other fish.
73

The overall propose of this project is to determine how increased availability of food resources 

in the Sacramento River contributes to improved rearing habitat for listed salmonids and other 

resident and migratory fish.

In the Central Valley of California, approximately 3360 km of state and federal levees (Inamine 

et al. 2010), along with local flood protection projects, have cut off approximately 95% of 

historical floodplain wetlands from their river channels. Recent state-wide analysis of the 

conservation status of freshwater fishes have concluded that lack of floodplain and other off

channel habitat is an important contributor to widespread decline of many fish species (Moyle 

et al. 2011, Katz et al. 2013). In the Central Valley, studies have shown that, when inundated by 

flood waters, floodplains are generally warmer due to increased surface area and residence time 

compared to the relatively cool and swift river channel (Ahearn et al. 2006, Grosholz and Gallo 

2006). Elevated phytoplankton growth in floodplain habitats provides food resources for 

grazing zooplankton and other invertebrates, which ultimately become food resources for fishes 

(Sommer et al. 2001b, Miiller-Solger et al. 2002, Ahearn et al. 2006, Grosholz and Gallo 2006, 

Jeffres et al. 2008). Due to the limited amount of floodplain habitats remaining within the levee 

footprint, there has been much focus on how the flood bypasses - which still hydrologically 

connect to river channels during high flow events - may be modified to better mimic historical 

shallow flooding patterns that once sustained aquatic food webs and were important drivers of 

fish and wildlife abundance in the Sacramento Valley.

Recent research has shown that agricultural fields in the Yolo Bypass and the Sutter Bypass can 

also provide a productive food web and abundant food resources for juvenile salmonids when 

intentionally flooded using existing irrigation infrastructure. The overall rapid growth and 

robust body condition of the salmon in these studies demonstrates that winter flooding of 

bypass agriculture fields during the non-growing season can provide high quality habitat for 

rearing juvenile Chinook salmon in all water years. These results suggest that changes to 

agricultural management and infrastructure that increase the frequency and extend the 

inundation duration of bypass flood events could allow bypass agriculture fields to serve as 

large-scale surrogates for floodplain wetlands (Katz et al. 2017).

Another potential opportunity for aquatic food web production in the Sacramento Valley is the 

approximately 500,000 acres of rice ground that lies on historical low-elevation floodplains that 

are now on the "dry-side" of flood protection levees. Over the last three decades, rice growers 

in the Sacramento Valley have adopted and continued to refine farm practices that provide 

wetland habitat for waterfowl and shorebirds on winter-flooded rice fields that remain in active 

agricultural production during summer (Eadie et al. 2008, Elphick 2008, Elphick et al. 2010, 

Strum et al. 2013). One of these practices, which occurs on approximately 300,000 acres of rice 

ground in the Sacramento Valley annually, is the shallow flooding of rice fields after harvest in 

fall to aid in rice stubble decomposition. This managed inundation produces conditions similar 

to natural floodplain wetlands (i.e., surrogate floodplains), and has had positive, landscape -level 

effects on native waterfowl populations including recent all-time high counts of wetland bird 

species (Elphick et al. 2010).

Current farm practices keep decomp water on fields where it percolates into the ground or 

evaporates. Unfortunately for fish, very little of this decomp water, which the 2017 Fish Food 

project pilot year showed are rich in zooplankton and other invertebrates (i.e., fish food), 

returns back to the river. The Fish Food project is focused on reintegrating the natural winter 
74

productivity of these managed, "dry-side" floodplain farm fields with the river aquatic food web 

where it can support salmonid and other fish populations.

Data Management

The PMT Data Steward will coordinate with external partners and biannually with the CVPIA Data 

Manager on the transmission of long-term monitoring and other pertinent data defined by the SIT 

and the PMT per the 2020 Data Guidance.

Field data will be recorded on data sheets or directly into a recording device/computer and

transferred into a computer spreadsheet or database. The PMT Data Steward will coordinate with 

the CVPIA Data Manager on the transmission of relevant and pertinent data defined by the SIT and 

the PMT per the 2020 Data Guidance. Field data, analyses, and reports will be stored and backed up 

on a PMT computer/server.

Data produced by this project will be used in the development of a sub-module of the Science 

Integration Team’s Salmon Decision Support Model(s). The Project Management Team Leader will 

coordinate with the CVPIA Science Coordinator on the development and submission of a SIT DSM 

Modification Proposal (Using the standard proposal template), as well as ensure progress on 

completing the sub-module in cooperation with the Science Integration Team.

Field data will be recorded on data sheets or directly to a laptop computer and transferred into a 

computer database. Field data, analyses, and reports will be stored and backed-up on a CalTrout 

server.

Risks

Risk Likelihood Impact

Operating under existing water rights; project qualifies for a

Notice of Exemption under CEQA with RD 108 acting as the 

lead agency.

I 1

Time delay on grant agreement development, review and 

execution for funding for Years 2 and 3: Our ability to perform 

work, supply large amounts of water and contract/coordinate 

with sub-contractors is dependent on being able to develop, 

review and execute grant agreements and make funding 

available. Given past experiences, there is a risk that the 

development, review and approval (Secretary) may cause 

significant delay in agreement execution and funding 

availability and may result in needing to alter the schedule or 

extend project timelines. 

1 4

Operating in a dynamic environment: inundating/draining 

large amounts of farm acres and conducting in-field 

monitoring and research in a historic floodplain presents 

uncertainty based on weather, climate and flood conditions. 

In some cases, flood or drought years may delay work or limit 

our ability to meet objectives on the number of acres 

1 2
75

inundated, amount of fish food augmented or types of data 

collected. We have taken preventative steps including 

strategically selecting field sites, moving operations outside of 

flood bypasses, etc. to minimize this risk. 

Cost Estimate

Year Fund Total BOR FWS Locals and NGO match

2019 CVPRF $997,775 $881,973 $0 $115,802

2020 CVPRF $1,186,140 $1,083,775 $0 $102,365

2021 CVPRF $1,378,512 $1,166,288 $0 $212,224

Total Cost: $3,562,427
76

Internal Agency Resources Table

Type Name Total Agency Fund Description

2019

Science & Monitoring

Agreement Research $660,218 Local CVPRF Year 1 Science, and monitoring (water quality, nutrient 

chemistry, phytoplankton and zooplankton sampling)

In-Kind Science Research $115,802 Local IKS Year 1 Science, and monitoring (water quality, nutrient 

chemistry, phytoplankton and zooplankton sampling)

Water Supply & Operations

Agreement Water Supply $184,500 Local CVPRF Year 1 Water supply and operations $28/acre/per drainage 

cycle – up to 6,500 acres total, plus $2,500 in project 

management

Reporting

Agreement Reporting $37,257 Local CVPRF Year 1 Data analysis and report writing

2020

Science & Monitoring

Agreement Research $548,463 Local CVPRF Year 2 Science, and monitoring (water quality, nutrient 

chemistry, phytoplankton and zooplankton sampling) This 

includes $75,000 for hydrodynamic modeling and $30,000 for 

biogeochemistry analysis. 

Labor Modeling $75,000 Reclamation–

TSC

CVPRF TSC will model 67 miles of mainstem Sac River with existing 

SRH-2D model for mixing & dilution (Yong Lai (TSC) &/or 

Jenna Paul – MP-700)

In-Kind Science Research $102,365 Local IKS Year 2 Science, and monitoring (water quality, nutrient 

chemistry, phytoplankton and zooplankton sampling)

Water Supply & Operations

Agreement Water Supply $427,500 Local CVPRF Year 2 Water supply and operations $28/acre/per drainage 

cycle – up to 15,000 inundated acres drained, plus $7,500 in 

project management
77

Type Name Total Agency Fund Description

Reporting

Agreement Reporting $32,812 Local CVPRF Year 2 Data analysis and report writing

2021

Science & Monitoring

Agreement Research $568,788 Local CVPRF Year 3 Science, and monitoring (water quality, nutrient 

chemistry, phytoplankton and zooplankton sampling) This 

includes $42,400 for biogeochemistry analysis.

In-Kind Science Research $212,224 Local IKS Year 3 Science, and monitoring (water quality, nutrient 

chemistry, phytoplankton and zooplankton sampling)

Water Supply & Operations

Agreement Water Supply $567,500 Local CVPRF Year 3 Water supply and operations $28/acre/per drainage 

cycle – up to 20,000 inundated acres drained, plus $7,500 in 

project management

Reporting

Agreement Reporting $30,000 Local CVPRF Year 3 Data analysis and report writing
78

Measuring the Impact of Removing Predator Contact Points on 

Juvenile Salmon Survival

Define predator contact points, then determine if predator contact points exist. Hypothesis: Can 

CVPIA management actions modify the contact point in a manner that increases juvenile salmonid 

survival?

DCN: AFRP2110

Classification: Research, Monitoring, Modeling

Location: North Delta & Sundial Bridge near Redding, CA

Funding Years: 2018 – 2022

Benefits Start Year: 2023

Priority: SIT FY2020 Tech Memo: Fall Chinook – 1 Adaptively manage 

reduction/imp. Predator contact points

Partners: NMFS, DAF Consultants, EBMUD, FWS, MWD, Natural Resource 

Scientists

Related Programs: No Data.

Authority

Provision Percentage

3406(g) 100%

Metrics

Name Value Units Comment

Reduced model 

uncertainty

1 completion Study will reduce SDM model uncertainty in 

determining what affects juvenile survival, 

focusing on ‘Predator Contact Points’ in 

association with setback levee on Bouldin Island.

number of contact 

points addressed

1 number of 

improvements

Reclamation District No. 756 will be 

implementing a $9.5 million set-back levee on 

Bouldin Island in 2018. We plan on identifying 

contact points in the Mokelumne River and 

around Bouldin Island and Webb Tract

reach-scale juvenile 

survival

5 percentage of 

fish

Increase in survival is predicted using the DSM 

parameter estimate for mortality per contact 

point (-0.0067). Assuming 5 contact points 

removed, we predict a 5/exp (-0.0067) = 5.0% 

increase in survival. Contact point restoration and 

post-restoration measures of juvenile survival will 

update the DSM parameter estimate.
79

Deliverables

Deliverables in all years of this project will be coordinated with the CVPIA Data Manager, CVPIA 

Science Coordinator, and CVPIA Fish Resource Area Coordinator.

The primary product of the research will be a conceptual model integrated into the current SIT 

Decision Support Model(s) for Chinook that better represents the role of predation on juvenile 

salmonid survival and production.

Date Title

Dec. 2019 Year 1 data collection report

Dec. 2020 Baseline Monitoring

Dec. 2021 Year 3 data collection report

Dec. 2022 Contact Point Modification Report

Dec. 2023 Final Report

Project Management Team

Ian Smith – USBR-BDO – Project Management Team Leader – COR/GOR

Corey Phillis – MetWD

Allison Groom – MetWD

Mike Horn – USBR-TSC

Rod Wittler – USBR-CVPIA

Cyril Michelle – NMFS-SWFSC

JD Wikert – USFWS-Lodi

Narrative

A key uncertainty of the DSM is ‘what affects juvenile salmonid survival.’ Scientific disagreement 

exists regarding 1) what is a predator contact point and 2) can they be restored to increases survival? 

Our objective is to reduce these uncertainties with a replicated before-after control-impact 

experiment to measure changes in survival following restoration of predator contact points. 

Predation Event Recorders (PERs) will measure juvenile survival associated with DSM contact 

points. Contact points will then be removed or modified, and juvenile survival again measured to 

test whether restoring contact points can increase juvenile survival. There are 3 possible outcomes: 

1) predation-events remain the same (or increase) at restored contact points, suggesting restoration 

has no effect; 2) predation-events decrease at restored contact points, but reach-scale survival does 

not change, suggesting restoring contact points simply redistributes predators; or 3) predation-events 

decrease at restored contact points, suggesting restoring contact points can reduce predation. So 

results can be generalized to other regions the project locations include delta (Bouldin Is and Webb 

Tract) and riverine habitats (Mokelumne and Sac. Rivers). FY19 activities include PER study in the 

delta associated with river lighting. FY20 activities may include lighted structure predation study in 

the upper Sacramento River near Redding, CA, pending additional funding.

Fall Chinook priority: adaptively manage reduction/improvement predator contact points. Winterrun PWT/SAIL: Reduce predation losses
80

Predation events will be estimated with PERs. Potential contact points and actions to restore, 

modify, or eliminate contact point will be identified (e.g., fill scour hole). We will identify 1 (Bouldin 

Is levee project) to six predator contact points, develop restoration actions and measures of survival 

post-restoration.

Biological objectives: increasing Abundance & Natural Productivity at Central Valley & Mokelumne 

River. Abundance metric: sum of all naturally-spawned juvenile abundance passing Chipps Island

and the lowermost Mokelumne River RST. Natural Productivity: number of natural-origin juveniles 

per natural-origin adults passing Chipps Island and the lowermost Mokelumne River RST.

We predict each contact point improvement will increase juvenile survival by 1% based on DSM 

parameter estimates. Survival predictions will be updated following pre-restoration monitoring to 

reflect the measured predation-related mortality associated with 1) contact points in the DSM model 

inputs and 2) predator contact points identified by PER results. Predictions will be compared to 

measured changes in survival.

Project leverages a set-back levee restoration action on Bouldin Is.7. Implementation will reduce 

DSM uncertainty on the effect of contact points on survival.

Not implementing the charter means continued uncertainties in efficacy of restoring predator 

contact points to increase juvenile salmonid survival and missed opportunity for identifying 

beneficial fish impacts associated with levee setbacks in the Delta. There are no known stakeholder 

objections to this charter; landowner (MWD) is on PMT.

Data Management

The PMT Data Steward will coordinate with external partners and biannually with the CVPIA Data 

Manager on the transmission of long-term monitoring and other pertinent data defined by the SIT 

and the PMT per the 2020 Data Guidance.

Field data will be recorded on data sheets or directly into a recording device/computer and 

transferred into a computer spreadsheet or database. The PMT Data Steward will coordinate with 

the CVPIA Data Manager on the transmission of relevant and pertinent data defined by the SIT and 

the PMT per the 2020 Data Guidance. Field data, analyses, and reports will be stored and backed up 

on a PMT computer/server.

1. The key uncertainty in the DSM is what affects juvenile survival. The objective of this charter is 

to reduce uncertainty in what affects juvenile survival by restoring contact points associated with 

predation-related mortality. The charter will measure the change in reach-specific survival 

following the restoration actions taken to reduce predator-related mortality associated with 

contact points. Predation will be measured with Predation Event Recorders before and after 

contact points are restored. Additional monitoring will measure changes to biotic (e.g., predator 

density) and abiotic features (e.g., depth, flow) following restoration of contact points. Biological 

responses to the project, measured as through-reach survival, are expected in the first 

outmigration season following the restoration actions on the contact points. Physical responses 

can be expected immediately after completion of restoration of the contact points.
81

2. Long-term monitoring of the project will utilize existing monitoring infrastructure. Rotary Screw 

Traps in the Mokelumne River and the Chipps Island trawl provide data to estimate Natural 

Productivity and Abundance objectives at the watershed and valley scale. Project scale 

monitoring can be achieved with acoustic or PIT tagged fish released upstream of the project 

areas. Full response to the project will be expected in one salmon generation. The magnitude of 

the proposed project is uncertain, but likely to be small. However, the intent of the project is to 

reduce this uncertainty and provide an estimate of how many contact points would need to be 

removed to achieve a detectable signal at the population level.

3. Data will be provided to CVPIA as GIS and/or Excel data and maintained in relational 

databases.

4. The performance metrics are described above. Each of these performance metrics are derived 

from the DSM or means objectives and will be integrated into the monitoring plan during Phase 

I of the charter when the PMT will develop the study design, sampling protocol and potential 

suite of restoration actions for likely contact points.

Risks

Risk Likelihood Impact

This project has a high likelihood of successful implementation 

because substantial planning will be done by the PMT during the 

first year of the study. During the first year of the charter, the PMT 

will develop a study design. The PMT will develop a list of contact 

points from data previously collected by NOAA SWFSC and others 

and identify the restoration actions that could be taken to eliminate 

or improve the contact points.

1 1

Inability to obtain permits. The project cannot be implemented 

without compliance with applicable environmental clearance and 

public notice requirements. This project has a high likelihood of 

success because it involves an already approved set-back levee on 

Bouldin Island that can be considered as one restoration action for 

the charter. For any work in the Mokelumne River, EBMUD has a 

programmatic EIR that could cover some of the potential restoration 

actions to selected contact points.

2 2

Landowner access permission. This project has a high likelihood of 

successful implementation (overall low risk) because it involves a 

willing landowner, MWD, to provide access to Delta river channels 

for project data collection/monitoring and access for potential 

restoration actions to selected contact points. Likewise, in the 

Mokelumne River, EBMUD maintains positive working relationship 

with landowners and irrigators who routinely allow access for annual 

monitoring.

1 1

Insufficient Funding. We anticipate substantial funding on cost share 

from project partners, as well as implementation funding from 

CVPIA. If these funds fail to materialize, the project is likely to be less 

successful.

1 2
82

Cost Estimate

Year Fund Total BOR FWS Local

2018 CVPRF $642,733 $642,733 $0 $0

2018 MetWD $800,694 $0 $0 $800,694

2019 CVPRF $703,801 $703,801 $0 $0

2019 MetWD $28,579 $0 $0 $28,579

2019 WRR $91,676 $91,676 $0

2020 CVPRF $1,342,162 $1,342,162 $0 $0

2020 MetWD $55,579 $0 $0 $55,579

2021 CVPRF $543,979 $543,979 $0 $0

2022 CVPRF $405,656 $405,656 $0 $0

Total Cost: $4,614,859
83

Internal Agency Resources Table

Type Name Rate Frac. MU Total Agency Fund Description

2018

Management

Agreement Management $10,600 1.00 0.00 $10,600 BOR CVPRF

Planning and Analysis

Agreement financial assistance 

agreement, if funded

$183,229 1.00 0.00 $183,229 BOR CVPRF

In-Kind Labor In-kind planning & 

analysis

$9,194 1.00 0.00 $9,194 Local Other Anticipated cost share from 

NMFS, EBMUD, and MWD.

Reporting

Agreement Reporting $21,370 1.00 0.00 $21,370 BOR CVPRF

Research

Agreement Research $427,534 1.00 0.00 $427,534 BOR CVPRF Includes most of $135k for 

Sac. River Lighting

In-Kind Labor In-kind research $791,500 1.00 0.00 $791,500 Local Other Anticipated cost share from 

NMFS, EBMUD, and MWD.

2019

Design

Agreement Design $106,000 1.00 0.00 $106,000 BOR CVPRF

Environmental Compliance 

and Permitting

Agreement Environmental compliance $84,800 1.00 0.00 $84,800 BOR CVPRF

Management

Agreement Management $10,600 1.00 0.00 $10,600 BOR CVPRF

Planning and Analysis

In-Kind Labor In-kind planning & 

analysis

$28,579 1.00 0.00 $28,579 Local Other Anticipated cost share from 

NMFS, EBMUD, and MWD.

Agreement Planning and analysis $480,390 1.00 0.00 $480,390 BOR CVPRF

Reporting

Agreement Reporting $22,011 1.00 0.00 $22,011 BOR CVPRF
84

Type Name Rate Frac. MU Total Agency Fund Description

Research

Agreement Sundial Bridge $91,676 1.00 0.00 $91,676 BOR Other

2020

Construction

Agreement Construction $636,000 1.00 0.00 $636,000 BOR CVPRF

Management

Agreement Management $10,600 1.00 0.00 $10,600 BOR CVPRF

Planning and Analysis

In-Kind Labor In-kind planning & 

analysis

$28,579 1.00 0.00 $28,579 Local Other Anticipated cost share from 

NMFS, EBMUD, and MWD.

Agreement Planning and analysis $205,268 1.00 0.00 $205,268 BOR CVPRF

Reporting

Agreement Reporting $11,336 1.00 0.00 $11,336 BOR CVPRF

Research

In-Kind Agreement In-kind research $27,000 1.00 0.00 $27,000 Local Other Anticipated cost share from 

NMFS, EBMUD, and MWD.

Agreement Research $478,958 1.00 0.00 $478,958 BOR CVPRF

2021

Management

Agreement Management $10,600 1.00 0.00 $10,600 BOR CVPRF

Planning and Analysis

Agreement Planning and analysis $510,028 1.00 0.00 $510,028 BOR CVPRF

Reporting

Agreement Reporting $23,351 1.00 0.00 $23,351 BOR CVPRF

2022

Management

Agreement Management $10,600 1.00 0.00 $10,600 BOR CVPRF

Planning and Analysis

Agreement Planning and analysis $371,005 1.00 0.00 $371,005 BOR CVPRF

Reporting

Agreement Reporting $24,051 1.00 0.00 $24,051 BOR CVPRF
85

Modeling Program

To manage, coordinate, plan and implement the CVPIA 3406(g) program.

DCN: 20INDP006

Classification: Improvement, Administration

Location: Central Valley wide, Central Valley Project Improvement Act

Funding Years: 2015 - 2022

Benefits Start Year: 2015

Priority: 1

Developing models and tools for ecosystem and water operations in Central 

Valley region is a CVPIA priority identified by the CALFED Bay Delta 

Program. This on-going program provides essential modeling supports for, 

including but not limited to, other CVPIA Programs. 17 different agencies 

including US FWS, CA FW, CA DWR utilize the models and tools 

developed and constantly updated by this CVPIA 3406 (g) program.

Partners: FWS, USGS, CDFW, DWR

Related Programs: CDFW, CVPCP, CVPIA b1, CVPIA b12, CVPIA b13, CVPIA b2, EWP, 

Interagency Ecological Program, NMFS, NMFS-RPAs, San Joaquin River 

Restoration Program, SWRCB, AFRP, BDCP, CALFED, California Drought 

Response

Authority

Provision Percentage

3406 (g) 100.0%

Metrics

Name Value Units Comment

Models and tools that 

supports ecosystem 

restoration and water 

operation decisions to reach 

the goal of fish doubling in 

the Central Valley region

1 number 

of 

models 

complete

1 Models and tools, developed by this 

program, vitally support CVPIA's meeting fish 

production and ecosystem restoration targets.

The benefits of Ecosystem and Water 

Operation Modeling underlies with the core 

mission and vision of CVPIA. See more in the 

Program Priority Section.

Deliverables

Date Title

Sep. 2020 1 D Hydrodynamic Modeling

Sep. 2020 2 D Hydrodynamic Modeling

Sep. 2020 Water Quality Modeling

Sep. 2020 CalSim Modeling
86

Date Title

Sep. 2020 SIT Fisheries Modeling Support

Sep. 2021 Annual Report for FY 2020

Sep. 2020 Annual Work Plan for FY 2021

Sep. 2020 HEC-5Q Temperature Modeling

Sep. 2020 Modeling Projects Management for FY19

Deliverables in all years of this project will be coordinated with the CVPIA Data Manager, CVPIA 

Science Coordinator, and CVPIA Fish Resource Area Coordinator.

Project Management Team

Project Manager: Jobaid Kabir, Chief; MP-740

Asst. Project Manager: Junaid As-Salek

Modeler, MP-740

Staff:

Jun Wang <junwang@usbr.gov>

Jim Shannon <jshannon@usbr.gov>

Michael Tansey mtansey@usbr.gov

Vanessa King vking@usbr.gov

Michael Wright <mwright@usbr.gov

Daniel Deeds <ddeeds@usbr.gov

Kirk Nelson <kenelson@usbr.gov

Eric Mork <emork@usbr.gov

Amanda Bahls abahls@usbr.gov

James Lu jlu@usbr.gov

Zackary Leady zleady@usbr.gov

Derya Sumer dsumer@usbr.gov

Rodney J. Wittler rjwittler@usbr.gov

Narrative

The Ecosystem Modeling effort is a continuing program that began in 1994 to develop models and 

tools to evaluate effects of alternative water management strategies, to improve scientific 

understanding of ecosystems.

In 1994, a Task Order Agreement namely— Sharing of Costs Agreement for Mitigation Projects 

Improvements (SCAMPI) has been entered into by the State of California, and by the United States 

for cost-sharing to support implementation of environmental restoration measures under CVPIA.

All studies and investigations shall take into account and be fully consistent with the fish, wildlife, 

and habitat protection and restoration measures required by the CVPIA. The CVPIA 3406(g) lists 9 

subject areas for study and investigation, including the following:

1. Related water quality conditions and improvement alternatives, including 

improved1temperature prediction capabilities as they relate to storage.
87

2. Development and use of base flows and channel maintenance flows to protect and restore 

natural channel and riparian habitat values.

3. Implementation of operational regimes at State and Federal facilities to increase springtime 

flow releases, retain additional floodwaters, and assist in restoring both upriver and 

downriver riparian habitats.

4. Measures needed to restore anadromous fisheries to optimum and sustainable levels in 

accordance with the restored carrying capacities of Central Valley rivers, streams, and 

riparian habitats

Comprehensive San Joaquin Water Quality Model (SJRSIM), CalSim II, DSM2, ECOSIM, 

InSALMO, C2VSIM, CalSim 3, CalLite II and HydroGeoSphere models, are developed and being 

modified to incorporate recent changes in legislative requirements and water-environment.

Funding-

· CVPIA Restoration Funds

· Water & Related Resources

· In-kind 25% cost sharing by State Agencies

Benefits -

· Improved flow and water temperature

· Improved water quality

· Better management for anadromous fish species

· Better planning of water operations

Reclamation Program Lead is responsible for administration of the program and coordination of 

program activities, budget and work with Federal and State agencies with the following duties:

- Prepare SCAMPI contract, monitor the expenditure and in-kind support of the partner 

agencies.

- Develop PWS, objectives, and milestones of projects.

- Develop and maintain long term modeling plans and PMPs for modeling projects and 

update these regularly.

- Submit all CVPIA 3406 (g) requisition packages on time.

- Plan, and manage CVPIA 3406 (g) modeling budgets and schedules.

- Respond FOIA requests.

- Promote effective communications with all partner-agencies like FWS, DWR, CAFW,

NOAA, USGS, USACE, Municipal Utility Districts, with Reclamation modelers, Budget Analyst, 

CVPIA Administrators, Acquisition, Reclamation and DWR legal counselors, accountant

The Program is jointly implemented by the U.S. Fish and Wildlife Service (Service) and the Bureau 

of Reclamation (Reclamation). Program management and technical support are shared by both 

agencies, with the Reclamation primarily leading on program management as stated above and full 

technical support for modeling projects management and implementation.

Funding for the CVPIA 3406(g) maintains a core capability in support of a science-based approach 

for selecting CVPIA programs and projects.
88

Data Management

All modelling data and files will be kept in the Planning Division at Cottage Way Office, 

Sacramento. Information resulting from activities funded by this charter, including all program 

reports and any raw data, will be permanently housed at BOR’s Interior Region 10, California Great 

Basin Office in Sacramento, and FWS’s Pacific Southwest Regional Office in Sacramento.

Management of confidential data and response to FOIA requests will be handled according to DOI 

and Reclamation protocols.

The Project Management Team (PMT) Data Steward will coordinate with external partners and 

biannually with the CVPIA Data Manager on the transmission of long-term monitoring and other 

pertinent data defined by the Science Integration Team (SIT) and the PMT per the 2020 Data 

Guidance.

Field data will be recorded on data sheets or directly into a recording device/computer and 

transferred into a computer spreadsheet or database. The PMT Data Steward will coordinate with 

the CVPIA Data Manager on the transmission of relevant and pertinent data defined by the SIT and 

the PMT per the 2020 Data Guidance. Field data, analyses, and reports will be stored and backed up 

on a PMT computer/server.

Data produced by this project will be used in the development of a sub-module of the Science 

Integration Team’s Salmon Decision Support Model(s). The Project Management Team Leader will 

coordinate with the CVPIA Science Coordinator on the development and submission of a SIT 

Decision Support Model (DSM) Modification Proposal (Using the standard proposal template), as 

well as ensure progress on completing the sub-module in cooperation with the Science Integration 

Team.

Risks

Risk Likelihood Impact

Adverse Stakeholders 1 3

Insufficient Field Data 2 2
89

Pre-Project and Post Project Monitoring Plans

CVPIA 3406 (g) Pre- and Post-Project Monitoring Plans (as of November 13, 2019)

CVPIA (g) Warrants Modeling Projects Pre- and Post-Project Monitoring Plans

(1) Comprehensive water budget of 

surface and groundwater 

supplies, considering all sources of 

inflow and outflow available over 

extended periods.

CalSim II, CalSim 3.0 CalLite, 

HGS, ANN, ECOSIM-W, 

C2VSIM and DSM2

DSM2 Particle Tracking Module Analysis and visualize the data.

Removal of the VAMP cycle and related relocation of the DO code, 

assignment of eastside streams and Delta connectivity to the San 

Joaquin cycles. General code relating to coupling with the 

groundwater model at stream nodes, removal of the constant head 

boundary at the Delta.

(2) Related water quality conditions, 

including temperature dynamics related 

to storage

Upper Sacramento River Water 

Quality Model (SRWQM), San 

Joaquin Basin Temperature 

Model HEC-5Q

SRWQM and HEC-5Q for Shasta Dam raise and expansion project 

modelling.

(3) Surface-ground and stream-wetland 

interactions

HydroGeoSphere, CVHGSM 

(Central Valley Hydro GeoSphere 

Model), C2VSIM

Coordinating with CVPIA Monitoring and Data Management by 

providing database support for Juvenile and Adult platforms and 

developing GIS projects’ database.

(4) Measures needed to restore 

anadromous fisheries to optimum and 

sustainable levels in accordance with 

the restored carrying capacities of 

Central Valley rivers, streams, and 

riparian habitats;

inSALMO Providing technical support for Bay Delta Office & Central Valley 

Operations.

Implementing Cost Sharing Agreement for Mitigation Projects with 

California DWR

(5) Development and use of base flows 

and channel maintenance flows to 

protect and restore natural channel and 

riparian habitat values;

RHEM Building expertise in HEC-RAS for determining water quality & 

habitat parameters on the Sacramento River Chinook Salmon Coarse 

Resolution Decision Support Model.
90

CVPIA (g) Warrants Modeling Projects Pre- and Post-Project Monitoring Plans

(6) Implementation of operational 

regimes at State and Federal facilities to 

increase springtime flow releases, retain 

additional floodwaters, and assist in 

restoring both upriver and downriver 

riparian habitats;

CalSim II, CalSim 3.0, CalLite and 

ECOSIM-W

Documentation of CalSim3 data input processes to help Reclamation 

recreate rim inflows and CalSimHydro inputs to include components 

such as precipitation, land use, ET, and reservoir evaporation.

(7) Measures designed to reach 

sustainable harvest levels of resident 

and anadromous fish, including 

development and use of systems of 

tradeable harvest rights;

SIT DSM Assisting CVPIA Science Integration Team (SIT) in using Chinook 

salmon lifecycle Decision Support Models (DSM), synthesizing data 

for DSM input, developing flow regimes for DSM Scenarios from 

CalSim II, CalSim 3, CalLite model outputs.

(8) Ecosystem modeling to identify 

opportunities to protect and restore 

wetland and upland habitats 

throughout the Central Valley;

inSALMO Continue adaptation/ development of hydrologic, fish-population 

and water temperature models at varying spatial and temporal 

scales.

(9) Measures to enhance the firm yield 

of existing Central Valley Project 

facilities, including improved 

management and operations, 

conjunctive use opportunities, 

development of off-stream storage, 

levee setbacks, and riparian restoration.

CalSim II, CalSim 3.0, CalLite and 

ECOSIM-W

Assisting and coordinating with partner agencies in modeling fish 

behavior, habitat, temperature, water flow, salinity and other water 

quality parameters. Tulare basin initial development, including draft 

WBA and DU delineations, ET and consumptive use datasets, and 

connectivity as implemented in WRESL code. 
91

Cost Estimate

Year Fund Total BOR FWS DWR

2015 CVPRF $721,529 $613,400 $108,129 $0

2015 SIK $944,573 $0 $0 $944,574

2016 CVPRF $606,531 $519,575 $86,953 $0

2016 SIK $972,911 $0 $0 $972,911

2017 CVPRF $538,720 $511,688 $27,032 $0

2017 SIK $793,332 $0 $0 $793,332

2018 CVPRF $600,000 $499,977 $100,023 $0

2018 SIK $832,999 $0 $0 $832,999

2019 CVPRF $650,000 $549,978 $100,022 $0

2019 SIK $832,998 $0 $0 $832,998

2020 CVPRF $700,000 $700,000 $0 $0

2020 SIK $832,999 $0 $0 $832,999

2021 CVPRF $700,000 $700,000 $0 $0

2021 SIK $832,999 $0 $0 $832,999

2022 CVPRF $700,000 $700,000 $0 $0

2022 SIK $832,999 $0 $0 $832,999

Total Cost: $12,092,588
92

Internal Agency Resources Table

Type Total FTE Agency Fund Description

2016

Administration

Labor $46,405 0.20 FWS CVPRF Co-Lead for USFWS, coordinating program activities within the service as well as 

reviewing and development of water operations and fishery modeling tools.

Labor $20,274 0.087 FWS CVPRF Coordinate fish model development and implementation

Labor $21,955 0.15 BOR CVPRF Modeling of CalSim3.0 and CalSim II

Labor $21,955 0.15 BOR CVPRF Develop, update, and implement modeling works related to CalSimII and RiverWare

Labor $21,955 0.15 BOR CVPRF Development, update, and implementation of water quality and CalLite models

Labor $24,394 .167 BOR CVPRF Supervisory Support: Oversee the modeling activities of Reclamation

Labor $121,970 0.80 BOR CVPRF In-Depth Temperature Modeler: Modeler responsible for in-depth model code 

modification and documentation of HEC-5Q and other temperature model

Labor $21,955 0.15 BOR CVPRF Modeler - CalSim3.0 coordination and using temperature model for CalSim.

Labor $12,197 0.08 BOR CVPRF Modeler responsible for in-depth model code modification and documentation of 

CalSim3 and other water operation model

Direct Contribution $11,098 BOR CVPRF Membership and participation in California Water and Environmental Modeling Forum 

(CWEMF) and other professional organizations, attend workshops etc., prepare 

publications and provide support for model application to stakeholders.

Labor $20,274 0.087 FWS CVPRF Develop and review of water temperature model

Labor $187,099 1.0 BOR CVPRF Program Manager, Project manager for the modeling projects and Program-Lead for 

Reclamation, coordinating program activities - Source: State Water Project Funds

In-Kind Labor $282,375 DWR SIK C2VSIM Model Development & Application - Fund Source: State Water Project Funds

In-Kind Labor $205,361 DWR SIK CalSim II Model Update & Application

In-Kind Labor $248,518 DWR SIK CalSim 3.0 Model Development & Application - Source: State Water Project Funds

In-Kind Labor $154,101 DWR SIK CalLite Model Development & Application - Source: State Water Project Funds

In-Kind Labor $82,556 DWR SIK Development & Application of ANN Model - Source: State Water Project Funds
93

Type Total FTE Agency Fund Description

Agreement6 $24,000 Local CVPRF To update the CalSim model with new water operation rules, maintain the 

model and improve the logics.

Labor7 $1,000 0.01 BOR CVPRF To award and manage the contract. CalSim contract and supporting works 

that will be performed by BOR Project Requisition. Local consultants will 

perform the work under a contract agreement.

Agreement8 $24,000 Local CVPRF To update the temperature and fisheries models. This Charter is for that portion of 

modeling support works that will be performed by the local consultants.

The labor rate showing is actually the total contract amount that is being expected to 

be funded by CVP RF.

Labor9 $1,000 0.01 BOR CVPRF To award and manage the contract.

Agreement10 $24,000 Local CVPRF To update the CalLite model and CalLite GUI . This Charter is for that portion of 

modeling support works that will be performed by the local consultants.

The labor rate showing is actually the total contract amount that is being expected to 

be funded by CVP RF.

Labor11 $1,000 0.01 BOR CVPRF To award and manage the contract.

2017

Administration

Labor $11,842 0.05 BOR CVPRF Development, update, and implementation of water quality and CalLite models.

Labor $2,253 0.01 FWS CVPRF Coordinate fish model development and implementation.

Labor $2,253 0.01 FWS CVPRF Develop and review of water temperature model.

Labor $11,842 0.05 BOR CVPRF Modeler responsible for in-depth model code modification and documentation of 

CalSim3 and other water operation model.

Labor $71,050 0.3 BOR CVPRF Modeler responsible for in-depth model code modification and documentation of 

HEC-5Q and other temperature models.

Labor $11,842 0.05 BOR CVPRF CalSim and Temperature Modeler.

6 FY16 CalSim Technical Support Charter

7 FY16 CalSim Technical Support Charter

8 FY16 FY16 Temperature and Fisheries Model Technical Support Charter

9 FY16 FY16 Temperature and Fisheries Model Technical Support Charter

10 FY16 CalLite Technical Support Charter

11 FY16 CalLite Technical Support Charter
94

Type Total FTE Agency Fund Description

Labor $2,368 0.01 BOR CVPRF Ground water and CalSim Modeler.

Labor $11,842 0.05 BOR CVPRF Develop, update, and implement modeling works related to CalLite GUI.

Labor $16,578 0.07 BOR CVPRF Oversee the modeling activities of Reclamation. (JK)

Labor $22,527 0.1 FWS CVPRF Co-Lead for USFWS, coordinating program activities within the service as well as 

reviewing and the development of water operations and fishery modeling tools. (DH)

Labor $201,309 0.85 BOR CVPRF Program lead for Reclamation, coordinating program activities within all agencies as 

well as reviewing and the development of water operations, ecosystem and fishery 

modeling tools. (JA)

In-Kind Labor $162,973 n/a DWR SIK CalLite Model Development & Application

In-Kind Labor $277,747 n/a DWR SIK CalSim 3.0 Model Development & Application

In-Kind Labor $179,609 n/a DWR SIK CalSim II Model Update & Application

In-Kind Labor $173,003 n/a DWR SIK C2VSIM Model Development & Application

Labor $2,368 0.01 BOR CVPRF Modeling of Ground Water, Subsidence and Climate Change Effect. (KN)

Agreement12 $49,000 n/a BOR CVPRF To QA QC of the CalLite GUI and extend the project performance period by 1 year.

Labor13 $1,562 1 BOR CVPRF To award and manage the contract

Agreement14 $19,085 n/a BOR CVPRF To pay for the Solver license

Labor15 $1,000 1 BOR CVPRF To award and manage the Solver contract

Agreement16 $49,000 n/a BOR CVPRF To update the models with new water operation rules, maintain the model and 

improve the logics

Labor17 $1,000 1 BOR CVPRF To award and manage the contract

Agreement18 $49,000 n/a BOR CVPRF To update the models with new water operation rules, maintain the model and 

improve the logics.

Labor19 $1,000 1 BOR CVPRF To award and manage the contract

2018

Planning and Analysis

12 FY17 CalLite GUI Project Extension & Modification Charter

13 FY17 CalLite GUI Project Extension & Modification Charter

14 FY17 CalSim Solver License Charter

15 FY17 CalSim Solver License Charter

16 FY17 CalSim, CalLite Temperature Modeling Support

17

 FY17 CalSim, CalLite Temperature Modeling Support

18 FY17 CalSim, Fisheries, Temperature Modelling Support

19 FY17 CalSim, Fisheries, Temperature Modelling Support
95

Type Total FTE Agency Fund Description

Labor $17,513 0.18 BOR CVPRF Updating and implementation of CalSim II model.

Automatic documentation of CalSim model logic.

(The labor rates are average of personnel involved.)

Labor $22,377 0.23 BOR CVPRF Development, update and implementation of water quality and CalLite models. (The 

labor rates are average of personnel involved.)

Labor $27,242 0.28 BOR CVPRF Develop, update and implement CalLite model and post processing tools. (The labor 

rates are average of personnel involved.)

Labor $90,483 0.93 BOR CVPRF 1D hydrodynamic modeling. (The labor rates are average of personnel involved.)

Direct Contribution $5,242 n/a BOR CVPRF Membership and participation in California Water and Environmental Modeling Forum 

(CWEMF) and other professional outreach activities, attend workshops etc., prepare 

publications and provide support for model application to stakeholders.

Labor $48,647 0.50 BOR CVPRF 2D hydrodynamic modeling to support SIT and BDO. (The labor rates are average of 

personnel involved.)

Agreement $20,000 n/a BOR CVPRF Temperature modeling contract / agreement

Labor $9,758 0.04 FWS CVPRF Temperature modeling support

Labor $23,350 0.24 BOR CVPRF Database development and support for fisheries program. (The labor rates are 

average of personnel involved.)

Labor $19,755 1.00 BOR CVPRF To support modelling for SIT program.

Agreement $20,000 n/a BOR CVPRF CalSim Modeling Contract / Agreement

Labor $4,879 0.02 FWS CVPRF CalSim II modeling support

Labor $9,758 0.04 FWS CVPRF Provides water quality modeling support.

In-Kind Labor $181,653 n/a DWR SIK C2VSIM Model Development & Application

In-Kind Labor $188,589 n/a DWR SIK CalSim II Model Update & Application

In-Kind Labor $291,634 n/a DWR SIK CalSim 3.0 Model development & application.

In-Kind Labor $171,122 n/a DWR SIK CalLite WRIMS platform-based model development & application

Labor $48,647 0.50 BOR CVPRF Program lead for Reclamation, coordinating program activities within all agencies as 

well as reviewing and the development of water operations, ecosystem and fishery 

modeling tools.

Labor $5,917 0.05 BOR CVPRF Oversees the modeling activities of Reclamation.

Labor $63,241 0.65 BOR CVPRF In-depth model code modification, automated calibration, and documentation of 

HEC-5Q and other temperature models in support of CIT, BDO and CVO. (The labor 

rates are average of personnel involved.)
96

Type Total FTE Agency Fund Description

Labor $87,564 0.90 BOR CVPRF In-depth model code modification and documentation of CalSim3 and other water 

operation models. (The labor rates are average of all personnel involved.)

Labor $7,319 0.03 FWS CVPRF Co-Lead for USFWS, coordinating program activities within the service as well as 

reviewing and the development of water operations and fishery modeling tools.

Labor $46,352 0.19 FWS CVPRF Develop and review of water temperature model

Labor $21,956 0.09 FWS CVPRF 2D HD model development and implementation. (The labor rates are average of 

personnel involved.)

2019

Planning and Analysis

Labor $5,917 0.05 BOR CVPRF Oversees the modeling activities of Reclamation.

Labor $7,319 0.03 FWS CVPRF Co-Lead for USFWS, coordinating program activities within the service as well as 

reviewing and the development of water operations and fishery modeling tools.

Labor $48,647 0.50 BOR CVPRF 2D hydrodynamic modeling to support SIT and BDO. (The labor rates are average of 

personnel involved.)

Labor $44,755 0.46 BOR CVPRF To support modelling for SIT program. (The labor rates are average of personnel 

involved.)

Labor $9,758 0.04 FWS CVPRF Provides water quality modeling support.

Labor $9,758 0.04 FWS CVPRF Temperature modeling support

Agreement $30,000 n/a BOR CVPRF CalSim Modeling Contract/Agreement

Labor $46,352 0.19 FWS CVPRF Develop and review of water temperature model

Labor $63,241 0.65 BOR CVPRF In-depth model code modification, automated calibration, and documentation of 

HEC-5Q and other temperature models in support of CIT, BDO and CVO. (The labor 

rates are average of personnel involved.)

Labor $87,564 0.90 BOR CVPRF In-depth model code modification and documentation of CalSim3 and other water 

operation models. (The labor rates are average of all personnel involved.)

Labor $21,956 0.09 FWS CVPRF 2D HD model development and implementation. (The labor rates are average of 

personnel involved.)

Labor $27,242 0.28 BOR CVPRF Develop, update and implement CalLite model and post processing tools. (The labor 

rates are average of personnel involved.)

Labor $48,647 0.50 BOR CVPRF Program lead for Reclamation, coordinating program activities within all agencies as 

well as reviewing and the development of water operations, ecosystem and fishery 

modeling tools.
97

Type Total FTE Agency Fund Description

Agreement $35,000 n/a BOR CVPRF Temperature modeling contract/ agreement

Labor $22,377 0.23 BOR CVPRF Development, update and implementation of water quality and CalLite models. (The 

labor rates are average of personnel involved

Labor $90,483 0.93 BOR CVPRF 1D hydrodynamic modeling. (The labor rates are average of personnel involved.)

Labor $17,513 0.18 BOR CVPRF Updating and implementation of CalSim II model.

Automatic documentation of CalSim model logic.

(The labor rates are average of personnel involved.)

Direct Contribution $5,242 n/a BOR CVPRF Membership and participation in California Water and Environmental Modeling Forum 

(CWEMF) and other professional outreach activities, attend workshops etc., prepare 

publications and provide support for model application to stakeholders.

Labor $23,350 0.24 BOR CVPRF Database development and support for fisheries program. (The labor rates are 

average of personnel involved.)

In-Kind Labor $171,122 n/a DWR SIK CalLite WRIMS platform based model development & application

In-Kind Labor $291,634 n/a DWR SIK CalSim 3.0 Model development & application.

In-Kind Labor $188,589 n/a DWR SIK CalSim II Model Update & Application

Labor $4,879 0.02 FWS CVPRF CalSim II modeling support

In-Kind Labor $181,653 n/a DWR SIK C2VSIM Model Development & Application

2020

Planning and Analysis

Labor $24,000 0.18 BOR CVPRF Updating and implementation of CalSim II model.

Automatic documentation of CalSim model logic.

(The labor rates are average of personnel involved.)

Labor $25,000 0.23 BOR CVPRF Development, update, and implementation of water quality models. (The labor rates 

are average of personnel involved.)

Labor $25,000 0.28 BOR CVPRF Develop, update and implement CalLite model and post-processing tools. (The labor 

rates are average of personnel involved.)

Labor $70,000 1.75 BOR CVPRF 1D hydrodynamic modeling. (The labor rates are average of personnel involved.)

Direct Contribution $5,000 n/a BOR CVPRF Membership and participation in California Water and Environmental Modeling Forum 

(CWEMF) and other professional outreach activities, attend workshops etc., prepare 

publications and provide support for model application to stakeholders.

Labor $70,000 0.50 BOR CVPRF 2D hydrodynamic modeling to support SIT and BDO. (The labor rates are average of 

personnel involved.)

Agreement $75,000 n/a BOR CVPRF CalSim and Temperature modeling contract / agreement
98

Type Total FTE Agency Fund Description

Labor $20,000 0.24 BOR CVPRF Database and GIS support for fisheries program. (The labor rates are average of 

personnel involved.)

Labor $36,000 0.20 BOR CVPRF To support modeling for SIT program.

Agreement $80,000 n/a BOR CVPRF CalSim Modeling Contract/Agreement

In-Kind Labor $181,653 n/a DWR SIK C2VSIM Model Development & Application

In-Kind Labor $188,589 n/a DWR SIK CalSim II Model Update & Application

In-Kind Labor $291,634 n/a DWR SIK CalSim 3.0 Model development & application.

In-Kind Labor $171,122 n/a DWR SIK CalLite WRIMS platform-based model development & application

Labor 54,000 0.50 BOR CVPRF Program lead for Reclamation, coordinating program activities within all agencies as 

well as reviewing and the development of water operations, ecosystem and fishery 

modeling tools.

Labor $6,000 0.05 BOR CVPRF Oversees the modeling activities of Reclamation.

Labor $110,000 0.65 BOR CVPRF In-depth model code modification, automated calibration, and documentation of 

HEC-5Q and other temperature models in support of CIT, BDO and CVO. (The labor 

rates are average of personnel involved.)

Labor $100000 0.90 BOR CVPRF In-depth model code modification and documentation of CalSim3 and other water 

operation models. (The labor rates are average of all personnel involved.)

2021

Planning and Analysis

Labor $25,000 0.23 BOR CVPRF Development, update, and implementation of water quality models. (The labor rates 

are average of personnel involved.)

Labor $25,000 0.28 BOR CVPRF Develop, update and implement CalLite model and post-processing tools. (The labor 

rates are average of personnel involved.)

Labor $70,000 1.75 BOR CVPRF 1D hydrodynamic modeling. (The labor rates are average of personnel involved.)

Direct Contribution $5,000 n/a BOR CVPRF Membership and participation in California Water and Environmental Modeling Forum 

(CWEMF) and other professional outreach activities, attend workshops etc., prepare 

publications and provide support for model application to stakeholders.

Labor $70,000 0.50 BOR CVPRF 2D hydrodynamic modeling to support SIT and BDO. (The labor rates are average of 

personnel involved.)

Agreement $85,000 n/a BOR CVPRF CalSim and Temperature modeling contract / agreement

Labor $20,000 0.24 BOR CVPRF Database and GIS support for fisheries program. (The labor rates are average of 

personnel involved.)

Labor $50,000 0.20 BOR CVPRF To support modeling for SIT program.
99

Type Total FTE Agency Fund Description

Agreement $80,000 n/a BOR CVPRF CalSim Modeling Contract / Agreement

In-Kind Labor $181,653 n/a DWR SIK C2VSIM Model Development & Application

In-Kind Labor $188,589 n/a DWR SIK CalSim II Model Update & Application

In-Kind Labor $291,634 n/a DWR SIK CalSim 3.0 Model development & application.

In-Kind Labor $171,122 n/a DWR SIK CalLite WRIMS platform based model development & application

Labor 54,000 0.50 BOR CVPRF Program lead for Reclamation, coordinating program activities within all agencies as 

well as reviewing and the development of water operations, ecosystem and fishery 

modeling tools.

Labor $6,000 0.05 BOR CVPRF Oversees the modeling activities of Reclamation.

Labor $110,000 0.65 BOR CVPRF In-depth model code modification, automated calibration, and documentation of 

HEC-5Q and other temperature models in support of CIT, BDO and CVO. (The labor 

rates are average of personnel involved.)

Labor $100000 0.90 BOR CVPRF In-depth model code modification and documentation of CalSim3 and other water 

operation models. (The labor rates are average of all personnel involved.)

2022

Planning and Analysis 

Labor $25,000 0.23 BOR CVPRF Development, update, and implementation of water quality models. (The labor rates 

are average of personnel involved.)

Labor $25,000 0.28 BOR CVPRF Develop, update and implement CalLite model and post-processing tools. (The labor 

rates are average of personnel involved.)

Labor $70,000 1.75 BOR CVPRF 1D hydrodynamic modeling. (The labor rates are average of personnel involved.)

Direct Contribution $5,000 n/a BOR CVPRF Membership and participation in California Water and Environmental Modeling Forum 

(CWEMF) and other professional outreach activities, attend workshops etc., prepare 

publications and provide support for model application to stakeholders.

Labor $70,000 0.50 BOR CVPRF 2D hydrodynamic modeling to support SIT and BDO. (The labor rates are average of 

personnel involved.)

Agreement $85,000 n/a BOR CVPRF CalSim and Temperature modeling contract / agreement

Labor $20,000 0.24 BOR CVPRF Database and GIS support for fisheries program. (The labor rates are average of 

personnel involved.)

Labor $50,000 0.20 BOR CVPRF To support modeling for SIT program.

Agreement $80,000 n/a BOR CVPRF CalSim Modeling Contract / Agreement

In-Kind Labor $181,653 n/a DWR SIK C2VSIM Model Development & Application

In-Kind Labor $188,589 n/a DWR SIK CalSim II Model Update & Application
100

Type Total FTE Agency Fund Description

In-Kind Labor $291,634 n/a DWR SIK CalSim 3.0 Model development & application.

In-Kind Labor $171,122 n/a DWR SIK CalLite WRIMS platform based model development & application

Labor 54,000 0.50 BOR CVPRF Program lead for Reclamation, coordinating program activities within all agencies as 

well as reviewing and the development of water operations, ecosystem and fishery 

modeling tools.

Labor $6,000 0.05 BOR CVPRF Oversees the modeling activities of Reclamation.

Labor $110,000 0.65 BOR CVPRF In-depth model code modification, automated calibration, and documentation of 

HEC-5Q and other temperature models in support of CIT, BDO and CVO. (The labor 

rates are average of personnel involved.)

Labor $100000 0.90 BOR CVPRF In-depth model code modification and documentation of CalSim3 and other water 

operation models. (The labor rates are average of all personnel involved.)
101

Sacramento River – East Sand Slough Restoration

Improves juvenile rearing habitat at East Sand Slough side channel on the Sacramento River in Red 

Bluff.

DCN: AFRP2113

Classification: Habitat Improvement, Habitat Restoration

Location: Sacramento River at Red Bluff, Sacramento Upper Mainstem

Funding Years: 2018 - 2021

Benefits Start Year: 2019

Priority: SIT FY2020 Tech Memo:

- Increase perennially inundated juvenile habitat, Sacramento River above the 

American River confluence

- Increase seasonally inundated juvenile habitat at 2 yr freq., Sacramento 

River above American River confluence

Partners: Sacramento River Forum, Tehama County RCD, USFS, City of Red Bluff, 

Glenn Colusa Irrigation District

Related Programs: CDWR, NMFS

Authority

Provision Percentage

(b)(13) 100%

Metrics

Name Value Units Comment

Juvenile Rearing 

Habitat

9 acres This is the estimated acres of low flow channel (2800 

meters long X 12 meters wide). Floodplain habitat 

will be incrementally wetted at a range of flows and 

provide additional habitat.

Large juveniles 

produced

67000 number of 

fish

Estimate of large Chinook outmigrants at two fish 

per square meter of rearing habitat (SIT value).

Deliverables

Deliverables in all years of this project will be coordinated with the CVPIA Data Manager, CVPIA 

Science Coordinator, and CVPIA Fish Resource Area Coordinator.

Date Title

Dec. 2019 Restoration site construction completed

Dec. 2020 Planting plan implemented.
102

Project Management Team

John Hannon – USBR-BDO

Jim Earley – USFWS-RBFO

Mike Berry – DWR

Ruth Goodfield – NMFS

Jenna Paul – USBR-MP-210

Narrative

1. Restoration at East Sand Slough side channel along the Sacramento River in Red Bluff. This area

was annually inundated when Red Bluff Diversion Dam was in place. Now that the dam is open 

the channel is dry when flow is less than around 20,000 cfs. The project would establish a 1 3/4-

mile-long low flow channel with incrementally inundated floodplain along the edges. Woody 

material would be added for cover. The area would be vegetated with appropriate riparian 

species. Due to the annual flooding of Lake Red Bluff most of the area is devoid of species 

besides annual grasses.

2. Provides rearing habitat in the Sacramento River at Red Bluff.

3. The project includes excavation of material through the channel to elevations providing 

perennial flow through. The excavated material would be recontoured at the site or into the 

main channel. The floodplain would be contoured to incrementally inundate vegetated habitat 

over the range of flows. Following construction appropriate riparian species would be planted. 

The project is through the center of the City of Red Bluff and on Forest Service land so 

appropriate public access and educational material would be incorporated.

4. Provides juvenile rearing habitat at an area downstream of the majority of spawning habitat and 

in an area where water temperatures are suitable for juvenile rearing year-round for all salmon 

and steelhead.

5. We predict that the project will result in larger juveniles out-migrating from this area of the river 

resulting in higher survival of those fish to the ocean (higher productivity from the upper 

Sacramento River) and ultimately higher returns of naturally produced fish from the upper 

Sacramento River.

6. The project has a large footprint relative to other projects proposed in the upper Sacramento 

River and thus is more costly and has a high potential biological benefit. Funding supports the 

full project through outreach, survey, design, construction, and monitoring. Participation of 

irrigation districts and other entities in construction will reduce costs and will be worked out in 

the design process.

7. Contributes to fundamental objective of providing juvenile rearing habitat along the migration 

corridor within an area with suitable water temperatures for year-round rearing to occur.

8. Focus is habitat improvement.

9. If not done the area will remain an open space, dry in summer and wetted when high flows 

occur. Partnership benefits will not be realized.

10. Red Bluff residents were disappointed when the RBDD dam gates were raised, changing the 

summertime lake-like conditions the community was accustomed to. Initial outreach has shown 

community interest in having a natural flowing channel through the area and other interest in 

having the lake back. Any stakeholder objections will be negotiated on a site-specific basis as 

they arise.
103

Project schedule could be accelerated with additional funding in FY18 if available.

Data Management

The PMT Data Steward will coordinate with external partners and biannually with the CVPIA Data 

Manager on the transmission of long-term monitoring and other pertinent data defined by the SIT 

and the PMT per the 2020 Data Guidance.

Field data will be recorded on data sheets or directly into a recording device/computer and 

transferred into a computer spreadsheet or database. The PMT Data Steward will coordinate with 

the CVPIA Data Manager on the transmission of relevant and pertinent data defined by the SIT and 

the PMT per the 2020 Data Guidance. Field data, analyses, and reports will be stored and backed up 

on a PMT computer/server.

1. Contract with DWR for design includes documentation of as-built conditions through 

survey or other means. Financial assistance agreement with CDFW for fisheries monitoring 

includes surveys of juvenile abundance and size at the project and control sites before and 

after implementation. Chico State is leading a study of growth at treatment and control sites 

in conjunction with other restoration sites. Long term trend monitoring is via the rotary 

screw traps at Red Bluff and the adult escapement surveys. The scale of projects is such that 

detecting population change attributable to projects will be difficult.

2. Center for data management yet to come.

3. Performance metrics are from the SDM fall-run model assumptions for juvenile rearing 

habitat capacity (2, 7, and 18 fish/m**2 for large, medium, and small fish respectively).

4. Data maintained by USBR and USFWS project managers and will be disseminated in annual 

reports.

Contacts: John Hannon at the Reclamation Bay Delta Office, and Jim Early at the USFWS Red 

Bluff Office.

Risks

Risk Likelihood Impact

Permits not obtained 1 3

Channel silts in 2 2

Landowner agreements not reached 1 3

Cost Estimate

Year Fund Total BOR FWS

2018 CVPRF $100,000 $100,000 $0

2019 CVPRF $3,538,000 $3,538,000 $0

2020 CVPRF $1,600,000 $1,600,000 $0

2021 CVPRF $800,000 $800,000 $0

Total Cost: $6,038,000
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Internal Agency Resources Table

Type Name Rate Frac. MU Total Agency Fund Description

2018

Implementation

Agreement Sacramento 

River Forum

$100,000 1.00 0.00 $100,000 BOR CVPRF Add funds to existing agreement to begin 

work on East Sand Slough restoration. Phase 

I of East Sand Slough project includes 

Outreach, Environmental Review, Permitting, 

restoration concepts.

2019

Implementation

Agreement Sacramento 

River Forum

$3,538,000 1.00 0.00 $3,538,000 BOR CVPRF Phase 1 of construction of side 

channel/floodplain habitat improvement at 

East Sand Slough in Red Bluff. Cost to be 

refined during FY18.

2020

Implementation

Agreement Sacramento 

River Forum

$1,600,000 1.00 0.00 $1,600,000 BOR CVPRF Complete construction, continue monitoring. 

Partner participation in construction may 

reduce cost substantially. Cost will be refined 

through the design process.

2021

Implementation

Agreement FA agreement 

with Sacramento 

River Forum

$800,000 1.00 0.00 $800,000 BOR CVPRF Finish revegetation and continue monitoring.
105

Sacramento River Tisdale Weir Sturgeon and Salmonid Passage

Reducing or eliminating opportunities for fish stranding in the stilling basin and Tisdale bypass.

DCN: AFRP2106

Classification: Habitat Improvement, Fish Passage

Location: Tisdale Weir, Sacramento Lower Mainstem

Funding Years: 2019 - 2021

Benefits Start Year: 2021

Priority: SIT FY2020 Tech Memo:

- All Chinook Runs: Increase access to juvenile rearing habitat in Sutter and 

Yolo Bypasses.

Partners: CDFW, CDWR, NMFS, USBR, USFWS

Related Programs: CDFW, NMFS-RP

Authority

Provision Percentage

(b)(1) 100%

Metrics

Name Value Units Comment

Fish stranded 0 percentage 

of fish 

blocked

Reducing adult and juvenile stranding of SCS, WCS, 

sturgeon and lamprey by improving access to the 

Sutter Bypass West Borrow Canal and to the 

Sacramento River.

Passage Barrier 

Improved

1 number of 

actions

Juvenile rearing habitat 

created

20,000 square feet Juvenile habitat created in Tisdale Bypass

Deliverables

Deliverables in all years of this project will be coordinated with the CVPIA Data Manager, CVPIA 

Science Coordinator, and CVPIA Fish Resource Area Coordinator.

Date Title

Sep. 2023 Final Report

Sep. 2020 Feasibility Study

Sep. 2021 Designs and Permits

Sep. 2022 Implementation and Construction
106

Project Management Team

Cesar Blanco, USFWS-CVPIA

Jim Early – USFWS-RBFO

Derek Rupert – USBR-NCAO

Narrative

This project was previously approved in the FY19 Annual Work Plan Charter to address adult 

stranding in the stilling basin immediately below the weir on the downstream side through fish 

passage and juvenile stranding and floodplain enhancement in the bypass.

The Tisdale Weir was identified as a FY18 priority for fall and spring Chinook salmon. Improving 

fish passage at Tisdale Weir would also improve the viability of the green sturgeon population. An

FY18 priority is to 'Adaptively manage reduction/improvement predator contact points,' such as 

stranding in bypasses. Fall Chinook salmon are a positive SIT/PWT integrated priority through 

Multi-taxa benefit, Benefits T and E species and Contributes to model/information gaps as 

identified in table 14 of the SIT Tech memo for FY18.

The Tisdale Weir Multi-Benefit Flood Project has two elements; Element 1 addresses adult fish 

passage and Element 2 addresses juvenile fish stranding and habitat enhancement and connectivity. 

Element 1 has been moving forward and this proposal seeks to provide funding for Element 2, so 

that both elements are working together to accomplish the overall project objectives.

Isolated pools occur in the Tisdale Bypass for a period of time after flows recede. Stranding 

potential is the greatest between Tisdale Weir and the Reclamation Road Bridge. The Tisdale Bypass 

between the Reclamation Road Bridge and the Sutter Bypass has a low-flow channel on each side of 

the Bypass that connects to the West Borrow Canal of the Sutter Bypass. However, the potential 

stranding areas closest to the weir are not connected to these low-flow channels. Element 2 seeks 

connectivity from pools to channels.

Reducing or eliminating opportunities for fish to be stranded in the stilling basin and throughout the 

bypass would reduce the potential for take of protected species including winter-run Chinook. 

Green sturgeon will benefit by FY18 and FY20 SIT priority 'Reducing illegal harvest (poaching) of 

adults,' by eliminating stranding sites below the weir. Green sturgeon also have a positive SIT/PWT 

integrated priority of Progress towards numeric goals and Benefit of T and E species.

The project addresses AFRP Final Restoration Plan E15 for Butte Creek, 'Evaluate juvenile and 

adult Chinook salmon stranding in Sutter Bypass and behind Tisdale, Moulton, and Colusa weirs 

during periods of receding flows on the upper mainstem Sacramento River. p65' The project also 

supports NMFS’s 2014 recovery plan for Central Valley salmonids, specifically Recovery Action 

SAR-1.12, 'In an adaptive management context, implement short- and long-term solutions to 

minimize the loss of adult Chinook salmon and steelhead in the Yolo bypass, and Colusa and SutterButte basins p158.'
107

Data Management

The PMT Data Steward will coordinate with external partners and biannually with the CVPIA Data 

Manager on the transmission of long-term monitoring and other pertinent data defined by the SIT 

and the PMT per the 2020 Data Guidance.

Field data will be recorded on data sheets or directly into a recording device/computer and 

transferred into a computer spreadsheet or database. The PMT Data Steward will coordinate with 

the CVPIA Data Manager on the transmission of relevant and pertinent data defined by the SIT and 

the PMT per the 2020 Data Guidance. Field data, analyses, and reports will be stored and backed up 

on a PMT computer/server.

Field data such as fish passage or count data, and data used for habitat assessment or hydrologic 

modeling will be recorded on data sheets or directly to a laptop computer, and later transcribed into 

a computer database or spreadsheet program. These data as well as model runs, project designs, 

permits, and reports will be stored on a computer hard drive and backed up on an agency or 

consulting firm server. Copies will be made available to CVPIA.

Risks

Risk Likelihood Impact

This project has a high likelihood of successful implementation (overall 

low risk) because it is supported by CDFW. The project does have a high 

cost, necessitating phased implementation.

1 1

Cost Estimate

Year Fund Total BOR FWS DWR DFW

2019 CVPRF $1,510,000 $0 $1,510,000 $0 $0

2019 SIK $2,140,000 $0 $0 $2,100,000 $40,000

202020 CVPRF $0 $0 $0 $0 $0

2020 SIK $5,000,000 $0 $0 $5,000,000 $0

2021 CVPRF $1,800,000 $0 $1,800,000 $0 $0

Total Cost: $10,450,000

20 The FY2019 funding amount of $1,510,000 included $1,060,000, which was the FY2020 allocated funding for this 

project.
108

Internal Agency Resources Table

Type Name Rate Frac. MU Total Agency Fund Description

2019

Implementation

In-Kind Labor Operations and 

Maintenance of Tisdale 

Weir

$100,000 1.00 0.00 $100,000 DWR SIK Grading as part of O&M to 

benefit final construction of 

improved site.

Monitoring

In-Kind Labor Monitoring and fish 

rescues

$40,000 1.00 0.00 $40,000 DFW SIK CDFW contributed $20K to 

date and will continue to 

contribute monitoring of fish 

presence and stranding at the 

site.

Planning and 

Analysis

Agreement Planning and determining 

design needs

$450,000 1.00 0.00 $450,000 FWS CVPRF Needed to compile all 

information and determine 

design and phasing 

needs/requirements.

Agreement Planning and determining 

design needs

$2,000,000 1.00 0.00 $2,000,000 DWR SIK Prop 1 funds in hand for 

addressing rehabilitation of 

weir infrastructure

Design

Agreement Design contract $265,000 1.00 0.00 $265,000 FWS CVPRF

Environmental 

Compliance and 

Permitting

Agreement Environmental Compliance 

Documents and Permit 

Contracts

$795,000 1.00 0.00 $795,000 FWS CVPRF
109

Type Name Rate Frac. MU Total Agency Fund Description

2020

Environmental 

Compliance and 

Permitting

Agreement Planning and 

determining design 

needs

$5,000,000 1.00 0.00 $5,000,000 DWR SIK Prop 1 funds in hand for 

addressing rehabilitation of weir 

infrastructure

2021

Construction

Agreement Construction 

contract

$1,800,000 1.00 0.00 $1,800,000 FWS CVPRF
110

Sacramento River - Improve Spawning Habitat above 

Temperature Control Points

Includes Gravel Injection at Keswick Dam and instream gravel placement at downstream locations 

to the temperature control point.

DCN: AFRP2114

Classification: Habitat Improvement

Location: Sacramento River Keswick to Clear Creek, Sacramento Upper Mainstem

Funding Years: 2018 - 2021

Benefits Start Year: 2019

Priority: SIT FY2018 Tech Memo:

- Winter Chinook – Upper Sacramento River above temperature control 

points, increase spawning habitat

Partners: Western Shasta Resource Conservation District, ACID, Glenn Colusa 

Irrigation District, Sacramento River Forum

Authority

Provision Percentage

(b)(13) 100%

Metrics

Name Value Units Comment

Gravel injected or 

placed

20000 cubic yards Volume can be adjusted to meet what the core 

team feels is reasonable. Injection is about 

$37/cubic yard (@1.5 ton/yard), and placement is 

around $42/cubic yard. Includes purchase, 

placement, and oversight.

Spawning Distribution 100 percentage 

of fish

Percent of fish spawning upstream of temperature 

compliance point

Survival 30 percentage 

of fish

Survival from egg to juvenile passage at Red Bluff

Deliverables

Deliverables in all years of this project will be coordinated with the CVPIA Data Manager, CVPIA 

Science Coordinator, and CVPIA Fish Resource Area Coordinator.

Date Title

Sep. 2018 Injected and placed gravel

Sep. 2019 Injected and placed gravel

Sep. 2020 Injected and placed gravel

Sep. 2021 Injected and placed gravel
111

Project Management Team

John Hannon (USBR)

Jim Early (USFWS-Red Bluff)

Paul Zedonis (USBR-NCAO)

Mike Berry (DWR)

Ruth Goodfield (NMFS)

Narrative

1. The project includes Gravel Injection at Keswick Dam and instream gravel placement at 

downstream locations to the temperature control point. The primary downstream sites are 

Market Street adjacent to the ACID water intake facility, the Redding Riffle area near the Sundial 

Bridge, and the South Cypress riffle. Market Street placement will help replenish gravel between 

that point and Turtle Bay area. South Cypress placement will help replenish the area on down to 

the general downstream area of winter Chinook spawning and the temperature compliance 

point.

2. Core team priority = increase spawning habitat in the Sacramento River above temperature 

control points.

3. Keswick Dam site includes injection via end dumping gravel off the side of the Keswick office 

parking lot. Expected quantity = 15,000 tons.

4. Market Street site is an in-river gravel placement on the south side of the river downstream of 

the ACID dam. Expected quantity = 15,000 tons.

5. Redding Riffle site is an in-river gravel placement on the south side of the river upstream of the 

Sundial Bridge. Expected quantity = 10,000 tons.

6. South Cypress is and in-river gravel placement south of the Cypress Avenue Bridge. Expected 

quantity = 20,000 tons.

7. Requested funding could implement at three of these sites. This project has a flexible funding 

amount depending on the desire of the core team. Higher funding = more gravel, lower funding 

= less gravel, no funding = no gravel.

8. Addresses maintaining or increasing egg to fry survival by providing habitat in the reach of the 

river with the coolest water during winter-run spawning.

9. The predicted outcome of maintaining spawning habitat in areas nearest Keswick Dam is 

maintained or improved egg to fry survival for winter Chinook at a given temperature regime, 

particularly in the dryer years with insufficient cold water pool storage, in comparison with 

letting the habitat degrade. Effects of the high flows in 2017 on habitat are yet to be fully 

assessed, but the injection site at Keswick Dam is devoid of gravel as of summer 2017. Permits 

are largely in place, so most of the cost goes directly to gravel placed into the river and the 

oversight of that activity.

10. Gravel placement is cost-effective as minimal design is required, so most of cost goes into 

implementation. Permits are mostly in place. Will be additionally evaluating bringing the gravel 

removed from the dual purpose canal adjacent to RBDD.

11. Contributes to the fundamental objective of providing spawning habitat in up-river areas and fits 

in conjunction with projects focusing on juvenile rearing habitat.

12. Focused on implementation.

13. Stakeholders feel that this activity needs to be implemented each year. The need likely varies by 

year with varying annual hydrology. It’s useful to maintain a stockpile at the Keswick injection 
112

site so that when mobilization flows occur the material is there to replace the coarse material 

blocked by the dam. Reclamation is contributing a gravel budget study starting in FY18 through 

the Re-initiation of Consultation on Long-Term Water Operations.

14. No known stakeholder objections. Site-specific issues are addressed in the collaboration that 

goes into implementation.

Data Management

The PMT Data Steward will coordinate with external partners and biannually with the CVPIA Data 

Manager on the transmission of long-term monitoring and other pertinent data defined by the SIT 

and the PMT per the 2020 Data Guidance.

Field data will be recorded on data sheets or directly into a recording device/computer and 

transferred into a computer spreadsheet or database. The PMT Data Steward will coordinate with 

the CVPIA Data Manager on the transmission of relevant and pertinent data defined by the SIT and 

the PMT per the 2020 Data Guidance. Field data, analyses, and reports will be stored and backed up 

on a PMT computer/server.

1. In-river placement documented via aerial photography. Spawning distribution is monitored 

via roughly weekly aerial redd surveys during winter-run spawning (May through August) 

and less frequent surveys the rest of the year for the other runs. Underwater videography or 

acoustics will attempt to document spawning in deep water areas of the canyon reach.

Gravel movement monitored via aerial photography after gravel mobilizing flow events.

2. Data management center yet to come.

3. Performance metrics = % of population spawning upstream of temperature compliance 

point and % of population estimated to be using placed gravel. Annual egg to Red Bluff 

survival is estimated by carcass surveys, hatchery fecundity data, and Red Bluff screw trap 

passage estimates.

4. Data maintained by USBR and USFWS project managers and will be disseminated in annual 

reports.

Risks

Risk Likelihood Impact

Permits not obtained 1 3

Truck falls into river; parking lot falls into river 1 3

Damage to ACID facilities 1 3
113

Cost Estimate

Year Fund Total BOR FWS

2018 CVPRF $800,000 $800,000 $0

2019 CVPRF $021 $0 $0

2020 CVPRF $1,600,000 $1,600,000 $0

2021 CVPRF $800,000 $800,000 $0

Total Cost: $3,200,000

21 FY2019 AWP allocation of $800,000 was unable to be obligated in FY2019 so funding was shifted to FY2020
114

Internal Agency Resources Table

Type Name Rate Frac. MU Total Agency Fund Description

2018

Implementation

Agreement Financial 

Assistance 

Agreement with 

Western Shasta 

RCD (WSRCD) or 

similar

$800,000 1.00 0.00 $800,000 BOR CVPRF The RCD or similar entity can act 

quickly to purchase gravel and get 

it placed in cooperation with 

Reclamation and other agencies.

2019

Implementation

Agreement Financial 

Assistance 

Agreement with 

WSRCD or similar 

entity

$0 1.00 0.00 $0 BOR CVPRF Gravel purchase, delivery, 

placement, and oversight. 

Completed project. Unable to 

obligate $800,000 in FY2019; 

Shifted to FY2020.

2020

Implementation

Agreement FA agreement 

with WSRCD or 

similar entity

$1,600,000 1.00 0.00 $1,600,000 BOR CVPRF Gravel purchase, delivery, 

placement, and oversight. 

Completed project.

2021

Implementation

Agreement FA agreement 

with WSRCD or 

similar entity

$800,000 1.00 0.00 $800,000 BOR CVPRF Gravel purchase, delivery, 

placement, and oversight. 

Completed project.
115

Sacramento River Salmonid Habitat Restoration

Implements a series of salmonid habitat improvement projects in the reach from Keswick Dam to 

Red Bluff area.

DCN: AFRP2115

Classification: Habitat Improvement, Habitat Restoration

Location: Sac River Redding to Red Bluff, Sacramento Upper Mainstem

Funding Years: 2015 - 2020

Benefits Start Year: 2016

Priority: SIT FY2018 Tech Memo:

- Fall Chinook – Sacramento Mainstem below Bend Bridge, 

Improve/increase juvenile chinook rearing habitat

- Winter Chinook – Upper Sacramento River above temperature control 

points, increase spawning habitat

Partners: City of Anderson, CA, City of Redding, FWS, Glenn Colusa Irrigation 

District, Golden Gate Salmon Association, National Fish, and Wildlife 

Foundation, NMFS, Sacramento River Forum, Tehama County RCD, 

USACE, Western Shasta Resource Conservation District, CDFW, CDWR

Related Programs: CDWR, NMFS, CDFW

Authority

Provision Percentage

(b)(13) 100%

Metrics

Name Value Units Comment

Rancho Breisgau Fish 

Production

30000 number 

of fish

Assumes approximately half of habitat is good rearing 

habitat and 2 large juveniles can be produced per 

square meter of suitable habitat (SIT value). 

COMPLETED 2018

Anderson River Park 

fish production

24000 number 

of fish

Assumes approximately half of habitat is good rearing 

habitat and 2 large juveniles can be produced per 

square meter of suitable habitat (SIT value)

COMPLETED 2019

Shea Side Channels fish 

produced

10000 number 

of fish

Based on 2,000 square meters of spawning habitat 

prevented from dewatering and 10% survival to 

juveniles of these fish at this side channel location 

where stranding has been reduced and habitat 

improved.

Rancho Breisgau 

Juvenile Habitat

8 acres Newly opened channel is 8,900 feet long by 40 feet 

wide. COMPLETED 2018

Anderson River Park 

Juvenile Habitat

6 acres Approximately 8,000 linear feet of new side 

channel/floodplain habitat with an average width of 

30 feet. COMPLETED 2019
116

Name Value Units Comment

Shea Side Channels 

area improved

0 acres Area of juvenile rearing habitat made perennially 

available.

Deliverables

Deliverables in all years of this project will be coordinated with the CVPIA Data Manager, CVPIA 

Science Coordinator, and CVPIA Fish Resource Area Coordinator.

Date Title

Nov. 2015 NEPA document done

Dec. 2015 First-year project site completed

Sep. 2016 Second-year project site completed

May. 2017 North Tobiasson Rearing structures completed

Jan. 2018 Lake California side channel completed

Apr. 2018 Kapusta 1A side channel completed

Nov. 2019 Rio Vista side channel completed

Dec. 2019 Reading Island Side Channel phase II completed

Dec. 2020 Anderson River Park channels completed

Dec. 2020 South Cypress Side Channels completed

Dec. 2020 Shea Island Side Channel work completed

Dec. 2022 Rancho Breisgau side channel completed

Mar. 2021 East Sand Slough side channel completed

Project Management Team

John Hannon (USBR-BDO)

Jim Earley (USFWS – Red Bluff)

Mike Berry (DWR)

Ruth Goodfield (NMFS)

Paul Zedonis (USBR-NCAO)

Narrative

1. Implements the annual salmonid spawning and rearing habitat restoration projects on the 

Sacramento River in the reach from Keswick Dam to the Red Bluff area. Activities include side 

channel creation and enhancement, gravel placement, floodplain enhancement, woody material 

and boulder additions, and effectiveness monitoring. Monitoring includes river wide monitoring 

and site-specific monitoring before, during, and after implementation at treatment and control 

sites.

2. Addresses the core team priority of increasing juvenile salmonid rearing habitat in the 

Sacramento River. Benefits all four Chinook runs and CV steelhead.

3. Project sites are Anderson River Park side channels and floodplain (partial funding already in 

place), Shea Island/Levee (= the seasonally disconnected side channels north of Clear Creek), 

Rancho Breisgau (= disconnected side channel at mouth of Battle Creek). The programmatic 

permitting for Sacramento River sites allows flexibility in implementation such that if a project 

falls through another with the same goals can quickly be put in its place...this was the case with 
117

Anderson River Park where South Cypress side channels and Tobiasson Rearing Structures 

became time-sensitive projects, so they moved in front of Anderson in priority. Funding can be 

flexible - reduced funding can still implement projects but fewer and/or smaller. The rearing 

habitat focus began in 2014 with the first rearing habitat focused project implementation in 2016 

(Kapusta 1A and North Cypress). Approximately 17 project sites are identified between Keswick 

and Red Bluff and expected to continue implementation through 2022. Programmatic permitting 

is in place.

4. Supports CVPIA progress towards doubling goals for all four runs of Chinook salmon and CV 

steelhead in the Sacramento River and valley wide by increasing abundance and size of juveniles 

emigrating from the upper Sacramento River so that fish will survive at higher rates through the 

lower river.

5. We predict that juvenile salmonids will utilize the projects for rearing in higher densities than 

under existing conditions and achieve growth rates supportive of survival down the river 

resulting in greater productivity of the upper Sacramento River. The monitoring plan includes 

determining fish abundance and size and project sites and control sites and attempting to 

determine growth rates through a controlled growth study.

6. Each project sites includes partnerships with irrigation districts (GCID, ACID, River Garden 

Farms, and RD 108) and private landowners. Cooperation of private landowners is key (each site 

averages three different landowners) and has increased as projects have been implemented and 

received favorable responses from the community. Permitting is largely in place for all sites with 

only the final site-specific details yet to be coordinated. The funding goes to design, 

implementation, oversight, and effectiveness monitoring.

7. Provides juvenile rearing habitat in close proximity to spawning habitat so that fry have habitats 

where they can feed and grow prior to emigrating through areas of lower water quality, higher 

predator densities, and varied habitat suitability.

8. Ongoing interagency partnerships with irrigation districts and landowners could be jeopardized 

if the work is not implemented. The Northern California Water Agency has included these 

project sites on their Sacramento Valley Salmon Recovery Program. The irrigation districts 

(GCID, River Garden Farms) provide construction labor and equipment (~4 months for seven 

people with equipment plus per diem provided in 2016-17).

9. No stakeholder objections identified. Site-specific concerns are addressed through collaboration 

with the local stakeholders.

Data Management

The PMT Data Steward will coordinate with external partners and biannually with the CVPIA Data 

Manager on the transmission of long-term monitoring and other pertinent data defined by the SIT 

and the PMT per the 2020 Data Guidance.

Field data will be recorded on data sheets or directly into a recording device/computer and 

transferred into a computer spreadsheet or database. The PMT Data Steward will coordinate with 

the CVPIA Data Manager on the transmission of relevant and pertinent data defined by the SIT and 

the PMT per the 2020 Data Guidance. Field data, analyses, and reports will be stored and backed up 

on a PMT computer/server.

1. Contract with DWR for design includes documentation of as-built conditions through survey or 

other means.
118

2. Financial assistance agreement with CDFW for fisheries monitoring includes surveys of juvenile 

abundance and size at project sites and control sites before and after implementation. Chico 

State is leading a study of juvenile growth at treatment and control sites. The monitoring plan is 

available.

3. Long-term trend monitoring is via the rotary screw traps at Red Bluff and the adult escapement 

surveys. The scale of projects is such that detecting population change attributable to projects 

will be difficult.

4. Center for data management yet to come.

5. Performance metrics are from the SDM fall-run model assumptions for juvenile rearing habitat 

capacity (2, 7, and 18 fish/m2for large, medium, and small fish respectively).

6. Data maintained by USBR and USFWS project managers and will be disseminated in annual 

reports.

Risks

Risk Likelihood Impact

Flows and fish and wildlife timing windows do not allow for 

instream work to occur.

2 2

Complex permitting processes add time and cost. 2 2

Landowner agreements not reached 1 3

Cost Estimate

Year Fund Total BOR FWS

2015 CVPRF $1,600,000 $1,600,000 $0

2016 CVPRF $600,000 $600,000 $0

2017 CVPRF $956,000 $956,000 $0

2018 CVPRF $1,800,000 $1,800,000 $0

2019 CVPRF $022 $0 $0

2020 CVPRF $4,000,000 $4,000,000 $0

Total Cost: $8,956,000

22 FY2019 AWP allocation of $2,00,000 was unable to be obligated in time so funding was shifted to FY2020
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Internal Agency Resources Table

Type Name Rate Frac. MU Total Agency Fund Description

2015

Implementation

Labor Western Shasta 

Resource 

Conservation 

District

$1,600,000 1.00 0.00 $1,600,000 BOR CVPRF Implements an in-river project 

including side channel habitat and 

gravel.

2016

Implementation

Labor Western Shasta 

Resource 

Conservation 

District

$600,000 1.00 0.00 $600,000 BOR CVPRF Implements an in-river project 

including side channel habitat and 

gravel.

2017

Implementation

Agreement Western Shasta 

RCD

$956,000 1.00 0.00 $956,000 BOR CVPRF Implement annual salmonid 

spawning and rearing habitat 

improvement project to include 

design, env. compliance and 

permitting and pre- and postproject monitoring to determine 

effectiveness.

2018

Implementation

Agreement Western Shasta 

RCD or other

$850,000 1.00 0.00 $850,000 BOR CVPRF Implements high priority Spawning 

and Rearing Habitat Enhancement 

Projects in the Shasta County area 

of the Sacramento River.

Agreement Pacific States 

Marine Fisheries 

Commission

$300,000 1.00 0.00 $300,000 BOR CVPRF Financial assistance agreement for 

monitoring effectiveness of 

projects.
120

Type Name Rate Frac. MU Total Agency Fund Description

Agreement Sacramento River 

Forum

$650,000 1.00 0.00 $650,000 BOR CVPRF Implements high priority side 

channel restoration project at 

Rancho Breisgau.

2019

Implementation

Agreement Western Shasta 

Resource 

Conservation 

District and/or Sac 

River Forum

$0 1.00 0.00 $0 BOR CVPRF Financial Assistance Agreements 

for continuation of the projects. 

Unable to obligate $2M in FY2019. 

Shifted to FY2020.

2020

Implementation

Agreement FA with WSRCD 

and/or Sac River 

Forum and others

$4,000,000 1.00 0.00 $4,000,000 BOR CVPRF Financial Assistance Agreements 

for project implementation.

Includes permitting, survey, design, 

construction, and monitoring. 

Includes $2.0M from FY2019.
121

Stanislaus River: Migratory Corridor Restoration

A collaborative habitat restoration effort focused on shallow-water rearing and migratory habitats 

benefitting juvenile salmonids in the Stanislaus River corridor.

DCN: AFRP2120

Classification: Habitat Improvement, Habitat Restoration

Location: Lower Stanislaus River, Stanislaus River

Funding Years: 2017 - 2020

Benefits Start Year: 2023

Priority: SIT FY2020 Tech Memo

This project works in close coordination with the (b)(13) provision, and 

other partners working further upstream on the Stanislaus River, to expand 

high quality migratory habitat downstream of Riverbank, and protect and 

enhance the natural production of salmonids in the system.

Partners: Cramer Fish Sciences, USBR-BDO (Hannon)

Related Programs: CVPIA (b)(1), CVPIA (b)(13), NMFS-RP, NMFS-RPAs

Authority

Provision Percentage

(b)(13) 100%

Metrics

Name Value Units Comment

Habitat Restored - Type 0 acres

Habitat Restored - Type 2 0 acres

Habitat Restored - Type 3 0 miles

Habitat Action - Type 1 1 # actions

Deliverables

Deliverables in all years of this project will be coordinated with the CVPIA Data Manager, CVPIA 

Science Coordinator, and CVPIA Fish Resource Area Coordinator.

Date Title

Sep. 2020 Report - Conceptual Design Analysis

Jun. 2021 Report - Final Design

Jun. 2021 Final Report - Permitting 

Dec. 2023 Final Project Report

Project Management Team

J.D. Wikert – USFWS

John Hannon – USBR-BDO
122

Narrative

This project is ongoing from FY2019. Additional funds cover monitoring, reporting, and outreach.

Previous Narrative:

1. Restore shallow water migratory habitat for juvenile salmonids on the Stanislaus River 

downstream of Riverbank. Potential sites have been identified, and landowners will be contacted 

to determine interest prior to developing conceptual designs. Future phases will implement 

restoration projects.

2. Project supports the SIT/Core Team priority: 'Stanislaus River, Improve/increase juvenile 

rearing habitat (floodplain)'.

3. Projects will provide crucial rearing habitat for out-migrating juvenile salmonids before they 

enter the San Joaquin River and Delta by developing restoration designs in collaboration with 

willing landowners, followed by construction of suitable projects.

4. The project addresses the Stanislaus River and CV wide doubling goals.

5. A single acre (a reasonably predictable project size) will provide habitat for up to 75000 juvenile 

Chinook Salmon (0.054 square meter/fry), as well as benefitting migrating steelhead. The 

implemented project will also provide possible refuge from predators for all juveniles migrating 

downstream.

6. One of the biggest challenges to implementing on-the-ground restoration is having willing (and 

enthusiastic) landowners. This process will identify those landowners that also have suitable 

property (minimum cut depth to achieve seasonally inundated habitat).

1. Working on multiple conceptual designs simultaneously will provide a reduction in overhead as 

permitting will be similar for multiple projects allowing for a more efficient regulatory process. 

Also, bang-for-the-buck will be determined by assessing multiple metrics for project designs 

(fish habitat/cut volume, tree impacts, etc.). Substantial on-the-ground implementation will 

occur in future phases.

7. The project supports the means objective of increasing the number of smolts produced, through 

enhancing growth opportunities and providing refuge from predators for migrating juveniles.

8. The project will benefit from some post-project monitoring designed to evaluate the differences 

between off-channel habitats restored in low gradient (sand bedded) versus higher gradient 

(gravel bedded) reaches, informing future decisions on locations for restoration.

9. Not continuing to implement the charter will result in continuing the long-term decline of 

salmonid production in the basin.

10. There are no known stakeholder objections to the charter. The project specifically calls for 

willing landowners, reducing the likelihood of project failure.

Data Management

The PMT Data Steward will coordinate with external partners and biannually with the CVPIA Data 

Manager on the transmission of long-term monitoring and other pertinent data defined by the SIT 

and the PMT per the 2020 Data Guidance.

Field data will be recorded on data sheets or directly into a recording device/computer and 

transferred into a computer spreadsheet or database. The PMT Data Steward will coordinate with 

the CVPIA Data Manager on the transmission of relevant and pertinent data defined by the SIT and 
123

the PMT per the 2020 Data Guidance. Field data, analyses, and reports will be stored and backed up 

on a PMT computer/server.

1. Data will initially reside with the grantee and will include conceptual and engineered designs, 

hydraulic models, topographic data, and biological survey data. Data will be in appropriate 

formats (e.g. Excel, GIS).

2. Data collection will follow standardized protocols (including those developed by CAMP) as 

appropriate. Data will be shared CVPIA and with the Center for Data Management when 

appropriate. Data will be available after appropriate QA/QC and will not contain any PII from 

the landowners without their consent.

3. Monitoring will depend on implementation of individual projects and will be coordinated with 

the SIT.

4. The PMT Data Steward will coordinate with external partners and biannually with the CVPIA 

Data Manager on the transmission of long-term monitoring and other pertinent data defined by 

the SIT and the PMT per the 2020 Data Guidance.

Field data will be recorded on data sheets or directly into a recording device/computer and 

transferred into a computer spreadsheet or database. The PMT Data Steward will coordinate with 

the CVPIA Data Manager on the transmission of relevant and pertinent data defined by the SIT and 

the PMT per the 2020 Data Guidance. Field data, analyses, and reports will be stored and backed up 

on a PMT computer/server.

Risks

Risk Likelihood Impact

Landowner permission/access 1 2

Cost Estimate

Year Fund Total BOR FWS

2017 CVPRF $445,200 $0 $445,200

2018 CVPRF $842,700 $0 $842,700

2019 CVPRF $408,100 $0 $408,100

2020 CVPRF $159,000 $0 $159,000

Total Cost: $1,855,000
124

Internal Agency Resources Table

Type Name Rate Frac. MU Total Agency Fund Description

2017

Design

Agreement new FWS financial 

assistance agreement, 

if funded

$100,000 1.00 0.06 $106,000 FWS CVPRF A grant or cooperative agreement will be 

completed with a qualified entity to design 

juvenile salmonid habitat improvements at 

priority sites with willing landowners in the 

lower Stanislaus River (downstream of 

Riverbank).

Environmental 

Compliance and 

Permitting

Agreement new FWS financial 

assistance agreement, 

if funded

$100,000 1.00 0.06 $106,000 FWS CVPRF A grant or cooperative agreement will be 

completed with a qualified entity to complete 

necessary environmental compliance and 

permitting documents related to juvenile 

salmonid habitat improvements in the lower 

Stanislaus River (downstream of Riverbank).

Inventory/

Reconnaissance

Agreement new FWS financial 

assistance agreement, 

if funded

$100,000 1.00 0.06 $106,000 FWS CVPRF A grant or cooperative agreement will be 

completed with a qualified entity to complete 

pre-project surveys related to juvenile salmonid 

habitat improvements in the lower Stanislaus 

River (downstream of Riverbank).

Management

Agreement new FWS financial 

assistance agreement, 

if funded

$20,000 1.00 0.06 $21,200 FWS CVPRF A grant or cooperative agreement will be 

completed with a qualified entity to identify 

willing landowners at priority sites, design and 

implement juvenile salmonid habitat 

improvements in the lower Stanislaus River 

(downstream of Riverbank).
125

Type Name Rate Frac. MU Total Agency Fund Description

Outreach

Agreement new FWS financial 

assistance agreement, 

if funded

$100,000 1.00 0.06 $106,000 FWS CVPRF A grant or cooperative agreement will be 

completed with a qualified entity to perform 

local outreach and education related to juvenile 

salmonid habitat improvements in the lower 

Stanislaus River (downstream of Riverbank).

2018

Construction

Agreement new FWS financial 

assistance agreement, 

if funded

$475,000 1.00 0.06 $503,500 FWS CVPRF A grant or cooperative agreement will be 

completed with a qualified entity to implement 

juvenile salmonid habitat improvements in the 

lower Stanislaus River (downstream of 

Riverbank).

Design

Agreement new FWS financial 

assistance agreement

$150,000 1.00 0.06 $159,000 FWS CVPRF NA

Environmental 

Compliance and 

Permitting

Agreement new FWS financial 

assistance agreement

$150,000 1.00 0.06 $159,000 FWS CVPRF NA

Management

Agreement new FWS financial 

assistance agreement, 

if funded

$20,000 1.00 0.06 $21,200 FWS CVPRF A grant or cooperative agreement will be 

completed with a qualified entity to identify 

willing landowners at priority sites, design and 

implement juvenile salmonid habitat 

improvements in the lower Stanislaus River 

(downstream of Riverbank).

2019

Construction

Agreement new FWS financial 

assistance agreement

$275,000 1.00 0.06 $291,500 FWS CVPRF NA
126

Type Name Rate Frac. MU Total Agency Fund Description

Management

Agreement new FWS financial 

assistance agreement, 

if funded

$10,000 1.00 0.06 $10,600 FWS CVPRF A grant or cooperative agreement will be 

completed with a qualified entity to identify 

willing landowners at priority sites, design and 

implement juvenile salmonid habitat 

improvements in the lower Stanislaus River 

(downstream of Riverbank).

Monitoring

Agreement new FWS financial 

assistance agreement, 

if funded

$100,000 1.00 0.06 $106,000 FWS CVPRF A grant or cooperative agreement will be 

completed with a qualified entity to monitor 

and assess effectiveness of recently 

implemented juvenile salmonid habitat 

improvements in the lower Stanislaus River 

(downstream of Riverbank).

2020

Monitoring

Agreement Labor $100,000 1.00 0.06 $106,000 FWS CVPRF Project associated monitoring

Outreach

Agreement Labor $10,000 1.00 0.06 $10,600 FWS CVPRF Outreach to local community and landowners

Reporting

Agreement Labor $40,000 1.00 0.06 $42,400 FWS CVPRF Project Reports
127

Stanislaus River Rotary Screw Trap Monitoring

Annual quantification of juvenile Chinook salmon production and the abundance of juvenile 

steelhead in the American River & Stanislaus River using rotary screw traps.

DCN: AFRP2131

Classification: Performance Monitoring, Performance Monitoring

Location: Stanislaus River

Funding Years: 2017 - 2021

Benefits Start Year: 2017

Priority: SIT Critical Monitoring Need - Monitoring of juvenile salmon production on 

the Stanislaus River provides fundamental data that are necessary to assess 

the biological response to habitat restoration activities in that CVP 

watershed.

Partners: CDFW, Pacific States Marine Fisheries Commission

Related Programs: Structured Decision Making

Authority

Provision Percentage

(b)(15) CAMP 100%

Metrics

Name Value Units Comment

count of fish produced 0 number of 

fish

The production or abundance of different life 

stages of juvenile salmon and steelhead are 

calculated on an annual basis based on 

monitoring data that are collected with rotary 

screw traps.

Deliverables

Deliverables in all years of this project will be coordinated with the CVPIA Data Manager, CVPIA 

Science Coordinator, and CVPIA Fish Resource Area Coordinator.

Date Title

Annually Annual Stanislaus River rotary screw trap report

Project Management Team

Cesar Blanco – USFWS-CVPIA
128

Narrative

The rotary screw trap monitoring activities in the Stanislaus River supply data that can be used to 

assess the biological response to habitat management activities in those watersheds. As such, they 

can be used to infer, at a watershed-level scale, how habitat restoration activities are affecting the 

number of juvenile Chinook salmon and steelhead in that river.

Data Management

The PMT Data Steward will coordinate with external partners and biannually with the CVPIA Data 

Manager on the transmission of long-term monitoring and other pertinent data defined by the SIT 

and the PMT per the 2020 Data Guidance.

Field data will be recorded on data sheets or directly into a recording device/computer and 

transferred into a computer spreadsheet or database. The PMT Data Steward will coordinate with 

the CVPIA Data Manager on the transmission of relevant and pertinent data defined by the SIT and 

the PMT per the 2020 Data Guidance. Field data, analyses, and reports will be stored and backed up 

on a PMT computer/server.

Risks

Risk Likelihood Impact

Low, unless funding distribution is delayed 1 2

Cost Estimate

Year Fund Total BOR FWS

2017 CVPRF $223,050 $0 $223,050

2018 CVPRF $221,300 $0 $221,300

2019 CVPRF $231,200 $0 $231,200

2020 CVPRF $225,000 $0 $225,000

2021 CVPRF $231,750 $0 $231,750

Total Cost: $1,132,300
129

Internal Agency Resources Table

Type Name Rate Frac. MU Total Agency Fund Description

2017

Monitoring

Agreement TBD $223,050 1.00 0.00 $223,050 FWS CVPRF NA

2018

Monitoring

Agreement TBD $221,300 1.00 0.00 $221,300 FWS CVPRF NA

2019

Monitoring

Agreement TBD $231,200 1.00 0.00 $231,200 FWS CVPRF NA

2020

Monitoring

Agreement F13AC00053 $225,000 1.00 0.00 $225,000 FWS CVPRF Project cost includes the 6% contract 

overhead cost.

2021

Monitoring

Agreement F13AC00053 $231,750 1.00 0.00 $231,750 FWS CVPRF The 2021 project cost uses the prior year 

cost estimate (and therefore includes the 

6% contract overhead cost) and includes 

a 3% inflation cost.
130

Sutter Bypass Weir 1 Restoration

Rehabilitation of weir structure and fish ladder at Weir 1, Sutter Bypass-West Borrow

DCN: AFRP2107

Classification: Habitat Improvement, Fish Passage

Location: Butte Creek / Sutter Bypass WBC Weir 1, Butte Creek

Funding Years: 2017 - 2021

Benefits Start Year: 2021

Priority: SIT FY2020 Tech Memo:

- Increase access to juvenile rearing habitat in Sutter and Yolo Bypasses

Partners: CDFW, DWR, FWS, NMFS

Related Programs: NMFS-RPAs

Authority

Provision Percentage

(b)(1) 100%

Metrics

Name Value Units Comment

Habitat 90 miles Access to 90 miles of holding and spawning 

habitat will be restored.

Deliverables

Deliverables in all years of this project will be coordinated with the CVPIA Data Manager, CVPIA 

Science Coordinator, and CVPIA Fish Resource Area Coordinator.

Date Title

Sep. 2021 Environmental Permitting

Sep. 2023 Final Report

Sep. 2022 Construction

Project Management Team

Jim Early – USFWS-RBFO

Cesar Blanco – USFWS-CVPIA

Derek Rupert – USBR-NCAO

Narrative

This downstream-most weir in the Suter Bypass blocks Spring-run Chinook adults from 90 miles of 

holding and spawning habitat. This project was previously approved in the FY17 and 2018 Annual 

Work Plans based on the priorities described below. The SIT prioritized improving adult & juvenile 
131

passage on Butte Creek and identified it as a high priority for FY2018. The project was also funded 

for planning and analysis in FY19. The project is currently undergoing regional and national 

approval and bidding process for hydraulic evaluation under Phase 1.

The project addresses AFRP Final Restoration Plan and CPAR actions:

E4) evaluate operational alternatives and establish operational criteria for Sutter Bypass Weir#1 p63, 

E9) evaluate alternatives to help fish passage, including the installation of a high water volume fish 

ladder on Sutter Bypass Weir #1 p64 and E15) Evaluate juvenile and adult Chinook salmon 

stranding in Sutter Bypass and behind Tisdale, Moulton, and Colusa weirs during periods of 

receding flows on the upper mainstem Sacramento River p65.

Butte Creek is one of the most productive streams in the Sacramento River Valley for federal and 

state listed spring-run Chinook salmon (SRCS). SRCS migrate through the Sutter Bypass to Butte 

Creek, navigating past several water control structures on their way to spawning areas in the Upper 

Butte Creek system. Months later, the juvenile salmon reverse this route on their way to the Pacific 

Ocean. The migration of anadromous fish, which includes (fall and spring) Chinook salmon and 

Central Valley steelhead, is impeded by the last remaining historic weir and ladder structure at Weir 1 

in the Sutter Bypass. There is also potential for out-migrating juveniles to be impacted by contact 

and turbulence created by the defunct infrastructure that remains instream. Conceptually, it can be 

replaced by a natural fishway or channel.

Explanation of fish population metrics:

Spring-run Chinook salmon: Improvements to the weir can prevent delays in migration and reduce 

mortalities of adult spring-run Chinook salmon specific to low flow and water temperatures when 

delayed.

This project was funded in FY17 for $318,000 for a feasibility study.

This project was approved in FY19 for $350,000 for planning, design and analysis.

Data Management

The PMT Data Steward will coordinate with external partners and biannually with the CVPIA Data 

Manager on the transmission of long-term monitoring and other pertinent data defined by the SIT 

and the PMT per the 2020 Data Guidance.

Field data will be recorded on data sheets or directly into a recording device/computer and 

transferred into a computer spreadsheet or database. The PMT Data Steward will coordinate with 

the CVPIA Data Manager on the transmission of relevant and pertinent data defined by the SIT and 

the PMT per the 2020 Data Guidance. Field data, analyses, and reports will be stored and backed up 

on a PMT computer/server.

Short term objectives will monitor reduction in passage delays and upstream timing and distribution. 

Rotary screw traps and escapement surveys will measure overall population trends and long-term 

objectives.
132

Risks

Risk Likelihood Impact

restore fish passage 1 1

Cost Estimate

Year Fund Total BOR FWS

2017 CVPRF $318,000 $0 $318,000

2018 CVPRF $0 $0 $0

201923 CVPRF $1,622,000 $0 $1,622,000

2020 CVPRF $212,000 $0 $212,000

Total Cost: $2,152,000

23 The FY2019 funding amount of $1,622,000 included $1,272,000, which was the FY2020 allocated funding for this 

project. The $212,000 in FY20 is additional funding to cover previously unbudgeted expenses for permitting.
133

Internal Agency Resources Table

Type Name Rate Frac. MU Total Agency Fund Description

2017

Environmental 

Compliance and 

Permitting

Agreement Grant or cooperative 

agreement or Interagency 

Agreement

$318,000 1.00 0.00 $318,000 FWS CVPRF Financial assistance agreement to 

complete compliance and permitting

2019

Environmental 

Compliance and 

Permitting

Agreement Grant or cooperative 

agreement or contract

$350,000 1.00 0.00 $350,000 FWS CVPRF Financial assistance agreement to 

complete compliance and permitting

Implementation

Agreement Grant, cooperative agreement 

or contract

$1,272,000 1.00 0.00 $1,272,000 FWS CVPRF Financial assistance agreement to 

complete implementation and as-built 

performance monitoring at the site.

2020

Environmental 

Compliance and 

Permitting

Agreement Environmental Compliance 

and Permitting

$212,000 1.00 0.00 $212,000 FWS CVPRF Agency Permitting and Environmental 

Consulting on CEQA / NEPA
134

Tracy Fish Facility Improvement Program

Annual Tracy Fish Facility Improvement Program (TFFIP)

DCN: 20INDP005

Classification: Research, Infrastructure Improvement

Location: Sacramento-San Joaquin Delta

Funding Years: 2020 - 2022

Benefits Start Year: 2020

Priority: 1 - Program Priority Comments: CVPIA (b)(4) metrics coincide with OCAP 

Biological Opinions

Partners: Collaborative research partners, DWR and CalF&W.

Related Programs: Crosscut with CVPIA (b)(1).

Authority

Provision Percentage

(b)(4) 100%

Project Management Team

J. Carl Dealy, Project Manager, USBR-Tracy Office

Rene Reyes, Supervisory Biologist, Tracy Office

Zachery Sutphin, Biologist, USBR-TSC

Connie Svoboda, Hydrologist, USSBR-TSC

Allen Lindauer, Chief, Operation & Maintenance Division, Tracy Office

Metrics

Completion of RPAs

Deliverables

Deliverables in all years of this project will be coordinated with the CVPIA Data Manager, CVPIA 

Science Coordinator, and CVPIA Fish Resource Area Coordinator.

Date Title

Dec. 2020 Accomplishments Report

Jan. 2021 Annual Report

EOFY Reports from individual subprojects funded by this project. (see attached 

“Tracy Volume Series Report Status”)

Narrative

This action consists of program administration and management support for the Tracy Fish 

Collection Facility Improvement Program. The program is implemented through an interdisciplinary 
135

approach; competitive process for soliciting proposals; integration with the CVP Conservation 

Program; protection, restoration, and enhancement of federally listed species and habitats affected 

by the CVP. Management includes program support, environmental compliance, scientific review 

and publication, peer review management, management of all collaborative processes as well as web 

site management. Administrative support is primarily oversight on all funded projects, coordination 

with the Tracy Technical Team and may also include acquisitions as needed.

Implementation during FY 2020 & FY2021 includes:

FY 2020 Projects Tracy Fish Facility Improvement Program emphasis is similar to FY 2018, in order 

is as follows: 1) Predator Evaluations, particularly related to Fish Release Sites; 2) Predator removal 

methods; 3) Whole Facility Evaluation using two mark and recapture methods. Much of the work 

will involve collaborations with other federal and State agencies. Result will be published to the 

Tracy Research Website http://www.usbr.gov/mp/TFFIP.

Ancillary to the core research efforts identified above is the Tracy Fish Collection Facility (TFCF) 

bathymetric survey. The data from the survey will be used for the FY2020-21 CO2 mathematical 

modeling and other predator control investigations.

Additionally, there are three RAX Projects; RAX 612, Antioch Fish Release Site Rebuild, RAX 655 -

TFCF Brannon Island FRS Replacement, and RAX 444, Water Velocity Control Upgrades 

Secondary Channel. All three of these projects fulfil Biological Opinion reasonable and prudent 

Actions.

Data Management

Data will be retained by the Tracy Fish Facility Improvement Program, SCCAO-Tracy. Finalized 

Study Plans, Tracy Series Reports, Tracy Technical Bulletins, Hydraulic Laboratory Technical 

Memos are maintained at Tracy Research Website http://www.usbr.gov/mp/tffip. Annual work 

plans and CVPIA program-level reports are maintained MPRO.

The PMT Data Steward will coordinate with external partners and biannually with the CVPIA Data 

Manager on the transmission of long-term monitoring and other pertinent data defined by the SIT 

and the PMT per the 2020 Data Guidance.

Field data will be recorded on data sheets or directly into a recording device/computer and 

transferred into a computer spreadsheet or database. The PMT Data Steward will coordinate with 

the CVPIA Data Manager on the transmission of relevant and pertinent data defined by the SIT and 

the PMT per the 2020 Data Guidance. Field data, analyses, and reports will be stored and backed up 

on a PMT computer/server.

Risks

No Data.
136

Cost Estimate

Year Fund Total BOR FWS

2020 WRR $1,895,000 $1,895,000 $0

2020 CVPRF $426,000 $426,000 $0

2021 WRR $3,777,500 $3,777,500 $0

2021 CVPRF $463,500 $463,500 $0

2022 WRR $2,910,500 $2,910,500 $0

2022 CVPRF $463,500 $463,500 $0

Total Cost: $9,936,000
137

Internal Agency Resources Table

Type Name Rate Frac. MU Total Agency Fund Description

2020

Administration

Agreement TFFIP $710,000 1.00 0.00 $710,000 BOR WRR Administration and Implementation of 

Program Priorities listed in narrative.

Agreement TFFIP $426,000 1.00 0.00 $426,000 BOR CVPRF Administration and Implementation of 

Program Priorities listed in narrative.

Contract RAX612 $1,005,000 1.00 0.00 $1,005,000 BOR Administration and Implementation of Project

Contract RAX655 $105,000 1.00 0.00 $105,000 BOR Administration and Implementation of Project

Contract RAX444 $75,000 1.00 0.00 $75,000 BOR Administration and Implementation of Project

2021

Administration

Agreement TFFIP $772,500 1.00 0.00 $772,500 BOR WRR

Agreement TFFIP $463,500 1.00 0.00 $463,500 BOR CVPRF Administration and Implementation of 

Program Priorities listed in narrative.

Contract RAX612 $2,500,000 1.00 0.00 $2,500,000 BOR Administration and Implementation of Project

Contract RAX655 $330,000 1.00 0.00 $330,000 BOR Administration and Implementation of Project

Contract RAX444 $220,000 1.00 0.00 $220,000 BOR Administration and Implementation of Project

2022

Administration

Agreement TFFIP $772,500 1.00 0.00 $772,500 BOR WRR

Agreement TFFIP $463,500 1.00 0.00 $463,500 BOR CVPRF Administration and Implementation of 

Program Priorities listed in narrative.

Contract RAX612 $0 1.00 0.00 $0 BOR Administration and Implementation of Project

Contract RAX655 $1,350,000 1.00 0.00 $1,350,000 BOR Administration and Implementation of Project

Contract RAX444 $788,000 1.00 0.00 $788,000 BOR Administration and Implementation of Project
138

2020 Annual Work Plan Public Draft

New Fisheries Charters

Central Valley Project Improvement Act

Title XXXIV of Public Law 102-575
139

Cosumnes River: Adult Escapement Monitoring

Cosumnes River Adult Escapement Monitoring

DCN: 20FHRP008

Classification: Monitoring

Location: Cosumnes River

Funding Years: 2017 - 2021

Benefits Start Year: 2017

Priority: Monitoring to track the impact of recently completed fish passage and 

spawning habitat restoration projects funded by CVPIA and the Service's 

National Fish Passage Program.

Partners: Fishery Foundation of California

Related Programs: NMFS-RP

Authority

Provision Percentage

(b)(15) 100.0%

Metrics

Name Value Units Comment

Population Assessment 2 number of 

reports

Project completes adult escapement and 

juvenile outmigration estimates annually.

Deliverables

Deliverables in all years of this project will be coordinated with the CVPIA Data Manager, CVPIA 

Science Coordinator, and CVPIA Fish Resource Area Coordinator.

Date Title

Dec. 2017 FY17 Cosumnes River Escapement and Outmigration Annual Report

Dec. 2020 FY20 Cosumnes River Escapement and Outmigration Annual Report

Project Management Team

Paul Cadrett (USFWS)

Bernard Aguilar (CDFW)

Trevor Kennedy (Fishery Foundation)

Narrative

This ongoing project addresses the FY2020 SIT monitoring priorities of adult escapement estimates.
140

The quantitative prediction of the expected outcome of the management actions is the number of 

adult Chinook salmon and steelhead returning to the Cosumnes River.

This project monitors annual adult escapement, spawning, and juvenile outmigration estimate for the 

Cosumnes River. CVPIA and other project partners have contributed in the past to implementing 

passage projects that have made the entire naturally accessible portion of the river available, yet 

escapement, production and outmigration were not monitored for many years. This project not only 

provides a population and production estimate for the watershed, but also provides significant postproject monitoring for projects completed by CVPIA and many of our partners in the last decade.

Reclamation and the Service continue to explore opportunities to improve instream flow, 

groundwater recharge and channel pre-wetting opportunities in the Cosumnes River. Recent 

assessments of consumptive use from potential willing water sellers has limited the ability to 

continue working on the initial conceptual project. However, additional opportunities and 

operational changes are being explored.

Data Management

The PMT Data Steward will coordinate with external partners and biannually with the CVPIA Data 

Manager on the transmission of long-term monitoring and other pertinent data defined by the SIT 

and the PMT per the 2020 Data Guidance.

Field data will be recorded on data sheets or directly into a recording device/computer and 

transferred into a computer spreadsheet or database. The PMT Data Steward will coordinate with 

the CVPIA Data Manager on the transmission of relevant and pertinent data defined by the SIT and 

the PMT per the 2020 Data Guidance. Field data, analyses, and reports will be stored and backed up 

on a PMT computer/server.

All data collected as part of this project is stored by the Fishery Foundation of California and 

provided to CVPIA staff electronically. Both FFC and USFWS keep secure electronic backup copies 

of the data.

Risks

Risk Likelihood Impact

Availability of 'extra' CDFW screw-trap 1 3

Cost Estimate

Year Fund Total BOR FWS

2017 CVPRF $63,600 $0 $63,600

2020 CVPRF $63,600 $0 $63,600

Total Cost: $127,200
141

Internal Agency Resources Table

Type Name Rate Frac. MU Total Agency Fund Description

2017

Monitoring

Agreement Cosumnes 

Escapement and 

Outmigration 

Grant

$60,000 1.00 0.06 $63,600 FWS CVPRF Grant provided to Fishery Foundation of 

California to complete escapement/

spawning surveys and operate the CDFW 

rotary screw-trap they have been loaned 

(used to be funded to operate but CDFW 

can no longer support that effort annually).

2020

Monitoring

Agreement Cosumnes 

Escapement and 

Outmigration 

Grant

$60,000 1.00 0.06 $63,600 FWS CVPRF Grant provided to Fishery Foundation of 

California to complete 

escapement/spawning surveys and operate 

the CDFW rotary screw-trap they have been 

loaned (used to be funded to operate but 

CDFW can no longer support that effort 

annually).
142

Feather River: Salmonid Spawning Habitat Improvement Project

The placement, sorting, and harvesting of gravel and cobble (1/4”-5”) to restore spawning habitat in 

the Feather River.

DCN: 20FHRP002

Classification: Habitat Improvement, Habitat Maintenance

Location: Feather River

Funding Years: 2019 - 2020

Benefits Start Year: 2020

Priority: FY2020 SIT Priority: Increase fall-run Chinook salmon spawning habitat, 

Feather River.

Partners: CDFW, CDWR

Related Programs: CDWR

Authority

Provision Percentage

(b)(1) 100.0%

Metrics

Name Value Units Comment

Spawning gravel 8,300 cubic 

yards

Depending on final site designs and constraints, 8,300 cubic 

yards of gravel will be placed in-river.

Spawning habitat 3 acres Depending on final site designs and constraints, up to 2.6 

acres of in-river spawning habitat will be created

Deliverables

Deliverables in all years of this project will be coordinated with the CVPIA Data Manager, CVPIA 

Science Coordinator, and CVPIA Fish Resource Area Coordinator.

Date Title

Oct. 2021 FY21 Feather Spawning Habitat Project Annual Report

Oct. 2022 FY22 Feather Spawning Habitat Project Annual Report

Oct. 2023 FY23 Feather Spawning Habitat Project Annual Report

Oct. 2024 FY24 Feather Spawning Habitat Project Annual Report

Oct. 2020 FY20 Feather Spawning Habitat Project Annual Report

Narrative

This project addresses the 2020 SIT priority for fall-run Chinook salmon of increase spawning 

habitat, Feather River. Based on the CVPIA SDM, the Feather River has a 39.43 acre deficit of 

spawning habitat for fall-run Chinook salmon.
143

Quantitative prediction of expected outcome: For purposes of testing the CVPIA DSMs, 

completion of this charter is expected to provide an additional 10,521 square meters of spawning 

habitat.

The proposed project is to strategically place 8,300 cubic yards of optimal sized salmon spawning 

gravel at 2-3 locations in the Feather River between RM 63 to 67. The project will be designed using 

a Feather River-specific Habitat Suitability Model to optimize depth, flow, and velocity at each 

location. Gravel will be placed on top of the existing substrate to build the gravel depth to at least 18 

inches, with the ultimate goal of placing gravel to optimize spawning habitat based on model 

predictions. Redd mapping and hydraulic modeling will be conducted before the project to 

document existing use and to inform the design of each new feature. Three years of post-project 

redd mapping will be performed to document use of the newly restored sites and to validate model 

predictions. The project will build on CDWR's implementation of a Gravel Supplementation and 

Improvement Project in 2014 and 2017 to further expand the available spawning habitat for fall-run 

Chinook salmon in the Feather River.

Data Management

The PMT Data Steward will coordinate with external partners and biannually with the CVPIA Data 

Manager on the transmission of long-term monitoring and other pertinent data defined by the SIT 

and the PMT per the 2020 Data Guidance.

Field data will be recorded on data sheets or directly into a recording device/computer and 

transferred into a computer spreadsheet or database. The PMT Data Steward will coordinate with 

the CVPIA Data Manager on the transmission of relevant and pertinent data defined by the SIT and 

the PMT per the 2020 Data Guidance. Field data, analyses, and reports will be stored and backed up 

on a PMT computer/server.

CDWR collects and manages all data related to this project and provides electronic copies to CVPIA 

staff. Secure electronic data backups will be retained by CDWR and USFWS. Additionally, data and 

analyses will be provided to CVPIA Fisheries.

Risks

Risk Likelihood Impact

Obtaining permits 1 1

Gravel availability. 1 1

Cost Estimate

Year Fund Total BOR FWS DWR

2020 SIK $150,000 $0 $0 $150,000

2020 CVPRF $1,060,000 $0 $1,060,000 $0

2022 SIK $50,000 $0 $0 $50,000

2023 SIK $50,000 $0 $0 $50,000

2024 SIK $50,000 $0 $0 $50,000

Total Cost: $1,360,000
144

Internal Agency Resources Table

Type Name Rate Frac. MU Total Agency Fund Description

2020

Environmental 

Compliance and 

Permitting

In-Kind Labor Environmental compliance 

and permitting

$100,000 1.00 0.00 $100,000 DWR SIK Environmental compliance and 

permitting

Implementation

Agreement Feather River Spawning 

Gravel Improvement 

Grant

$1,000,000 1.00 0.06 $1,060,000 FWS CVPRF Financial Assistance Agreement 

that will fund in channel 

placement of spawning gravel.

Monitoring

In-Kind Labor Pre-project monitoring $50,000 1.00 0.00 $50,000 DWR SIK Redd mapping

2022

Monitoring

In-Kind Labor Post-project monitoring $50,000 1.00 0.00 $50,000 DWR SIK Redd mapping

2023

Monitoring

In-Kind Labor Post-project monitoring $50,000 1.00 0.00 $50,000 DWR SIK Redd mapping

2024

Monitoring

In-Kind Labor Post-project monitoring $50,000 1.00 0.00 $50,000 DWR SIK Redd mapping
145

Feather River/Sutter Bypass - Nelson Slough Floodplain Habitat

The proposed project will substantially increase available floodplain habitat in the lower Feather 

River corridor through Nelson Slough and contribute to improved quality of juvenile salmonids 

rearing habitat through increased production and availability of food resources.

DCN: 20FHRP007

Classification: Habitat Improvement, Fish Passage

Location: Nelson Slough - Feather River/Sutter Bypass, Sacramento Lower Mainstem

Funding Years: 2020 - 2023

Benefits Start Year: 2020

Priority: SIT FY2020 Tech Memo: All Chinook Runs - Increase access to juvenile 

rearing habitat in Sutter and Yolo Bypasses.

An Action Priority 1 in the Recovery Plan for Winter and Spring-run 

Chinook salmon and Steelhead is to restore and maintain riparian and 

floodplain ecosystems along both banks of the Sacramento River to provide 

a diversity of habitat types including riparian forest, gravel bars and bare cut 

banks, shady vegetated banks, side channels, and sheltered wetlands, such as 

sloughs and oxbow lakes.

Partners: CDFW, USFWS

Related Programs: CVPIA b1, NMFS-RP

Authority

Provision Percentage

(b)(1) 100.0%

Metrics

Name Value Units Comment

Floodplain Enhancement 3,000 acres

Deliverables

Deliverables in all years of this project will be coordinated with the CVPIA Data Manager, CVPIA 

Science Coordinator, and CVPIA Fish Resource Area Coordinator.

Date Title

Dec. 2021 Nelson Slough Salmonid Floodplain Habitat Improvement Feasibility Study

Project Management Team

Paul Cadrett (USFWS)

Tanya Shea (CDFW)

Jason Kindopp (DWR)
146

Narrative

The proposed project completes a feasibility study to develop and evaluate potential restoration 

actions at the Nelson Slough Wildlife Area to increase the frequency with which floodplain habitat is 

inundated in the Sutter Bypass.

The project would be located on CDFW property at the confluence of the lower Feather River 

corridor and the Sutter Bypass near Nelson Slough.

The project could include lowering and widening an existing slough within setback levees in the 

lower Feather River corridor downstream of Highway 99 and tying this into the Sutter Bypass; 

creating multiple swales within the area; and/or lowering the floodplain terrace. This would allow 

Feather River basin water to flow into the Sutter Bypass with much greater frequency than under 

current conditions, thereby connecting remnant floodplain in the lower Feather River corridor with 

existing floodplain in the Sutter Bypass. The project could increase floodplain habitat available to 

Feather, Yuba, and Bear River salmonids by 3,000 to 5,000 acres. Additional floodplain inundation 

resulting from this project could provide rearing benefits to Sacramento River origin juvenile winter 

and spring-run Chinook salmon, juvenile Butte Creek spring-run Chinook salmon in the Sutter 

Bypass as well as to Feather River basin spring-run Chinook salmon. Currently, River Partners has 

been awarded funds through the Wildlife Conservation Board to conduct native riparian plantings at 

this site. These two efforts could be coupled together to further enhance the existing and newly 

created floodplain habitat.

The Peterson, Coarse Resolution model Report, 2014 (DSM) suggests that supporting juvenile 

Chinook size at emigration can be beneficial to the outcome of a greater number of returning adults. 

Post project monitoring may help improve or validate the hypothesis of the DSM.

Data Management

The PMT Data Steward will coordinate with external partners and biannually with the CVPIA Data 

Manager on the transmission of long-term monitoring and other pertinent data defined by the SIT 

and the PMT per the 2020 Data Guidance.

Field data will be recorded on data sheets or directly into a recording device/computer and 

transferred into a computer spreadsheet or database. The PMT Data Steward will coordinate with 

the CVPIA Data Manager on the transmission of relevant and pertinent data defined by the SIT and 

the PMT per the 2020 Data Guidance. Field data, analyses, and reports will be stored and backed up 

on a PMT computer/server.

All Study related documents will be stored on the U.S. Fish and Wildlife Service Red Bluff and Lodi 

FWO Websites at:

https://www.fws.gov/redbluff/afrp.html

https://www.fws.gov/lodi/anadromous_fish_restoration/afrp_documents.htm
147

Risks

Risk Likelihood Impact

Land Ownership, Permission and Access 1 1

Cost Estimate

Year Fund Total BOR FWS

2020 CVPRF $265,000 $0 $265,000

2021 CVPRF $424,000 $0 $424,000

2022 CVPRF $2,120,000 $0 $2,120,000

Total Cost: $2,809,000
148

Internal Agency Resources Table

Type Name Rate Frac. MU Total Agency Fund Description

2020

Inventory/

Reconnaissance

Agreement Feasibility Study $265,000 1.00 0.00 $265,000 FWS CVPRF Agreement will fund a feasibility 

study to determine effort for 

floodplain restoration

2021

Planning and 

Analysis

Agreement Planning and Analysis $424,000 1.00 0.00 $424,000 FWS CVPRF This phase will evaluate the

feasibility study and conduct

planning and design.

2022

Implementation

Agreement Construction and 

Implementation

$2,120,00

0

1.00 0.00 $2,120,000 FWS CVPRF Redesigning and constructing

floodplain and habitat features
149

Stanislaus River: Restoration at Kerr Park

The project will restore seasonal inundation to approximately 10 acres of floodplain habitat located 

at Kerr Park (rm 43), with additional in-channel enhancement.

DCN: 20FHRP003

Classification: Habitat Improvement, Habitat Restoration

Location: Stanley Wakefield Wilderness Area (Kerr Park) on the Stanislaus River

Funding Years: 2020 - 2024

Benefits Start Year: 2022

Priority: SIT FY20 Priorities:

- Increase perennially inundated juvenile habitat, Stanislaus River (Fall-run 

Chinook)

- Maintain spawning habitat in the CVP streams (all Chinook runs)

- Increase spawning habitat, Stanislaus River (Spring-run Chinook)

Partners: Augustine Planning & Associates, City of Oakdale, Cramer Fish Sciences

Related Programs: CALFED, CVPIA b1, CVPIA b13, NMFS-RP, NMFS-RPAs

Authority

Provision Percentage

(b)(13) 100.0%

Metrics

Name Value Units Comment

Spawning riffle 

creation (gravel 

augmentation)

7 acres Approximately 7 acres of instream spawning habitat 

restored.

Metric (acres restored) was chosen based on the 

information submitted to the CDFW FRGP for Phase I 

(Project Design).

Seasonally inundated 

floodplain habitat

21 acres Roughly 21 acres of floodplain habitat restored. Metric 

(acres restored) was chosen based on the information 

submitted to the CDFW FRGP for Phase I (Project Design).

Fish reared 0 number 

of fish

21 acres = 84,983 sq meters. 0.054 sq m/fry = ~1,573,750 

juvenile salmon

Deliverables

Deliverables in all years of this project will be coordinated with the CVPIA Data Manager, CVPIA 

Science Coordinator, and CVPIA Fish Resource Area Coordinator.

Date Title

Sep. 2022 Site Implementation

Oct. 2021 Environmental Compliance Docs & Permits
150

Date Title

Dec. 2020 Monitoring Plan

Sep. 2025 Final Project Report

Oct. 2021 Project Design

Project Management Team

J.D. Wikert, USFWS - Lodi

Kirsten Sellheim

Rocko Brown

Jesse Anderson

Joe Merz – Cramer Fish Sciences

Bryan Whitemyer – City of Oakdale

Narrative

Phase II of the Stanley Wakefield Wilderness Area Restoration Project (Kerr Park) will build upon 

the currently CDFW funded 100% project design plans to rehabilitate salmonid spawning and 

rearing habitat on the Stanislaus River. The project will benefit listed steelhead and Chinook Salmon. 

Phase I (already funded) will yield baseline data and analysis for 100% design plans. Phase II will 

complete a project monitoring plan and environmental permitting. Phase III will consist of 

restoration of up to 28 acres of channel, floodplain and upland habitats. Phase IV will implement 

post-project evaluation (to inform the SIT SDM and improve future project implementation), data 

analysis, and reporting.

Goals:

- Augment, rehabilitate, and enhance productive Stanislaus River juvenile salmonid rearing 

and adult spawning habitat;

- Enhance long-term juvenile salmonid access to floodplain habitat;

- Reduce main channel predatory fish habitat;

- Address goals of existing plans (see below) and work with existing restoration efforts;

- Improve community participation in habitat.

The project will address CVPIA goals (FRP A2), CVPIA Call for Proposals (Chinook Salmon: 

Maintain spawning habitat in CVP streams & Increase perennially inundated juvenile habitat in the 

Stanislaus River; Chinook Salmon Monitoring: Juvenile tributary survival). The project addresses 

abundance (FRP doubling goal), productivity, and life-history diversity metrics for the Stanislaus 

River and the Central Valley. It also directly addresses the OCAP RPA III.2.1 and RPA III.2.2, and 

NMFS CV Salmonid Recovery Plan (2.10: 8.2, 48.1, 48.2, 52.3, 59.3). The project addresses the most 

limiting factor for the watershed: availability of juvenile rearing habitat and will construct long-term 

floodplain habitat. The project will assess whether the juvenile survival and growth estimates for low 

gradient floodplains are appropriate for higher gradient gravel-bedded off-channel habitats. The 

project will include O. mykiss utilization of restored floodplain and in-channel habitats (Tables 13 & 

16, SIT FY2020 Tech memo).

Phase II will excavate perched floodplain (~21 acres), will create 3-4 spawning riffles/rearing habitat 

(~7 acres), and reduce habitat for predatory fish. 21 acres of floodplain habitat provides rearing for 
151

41,000-155,000 fry, and 7 acres of in-stream gravel provides spawning habitat for up to 2,200 redds 

and rearing for 12,000-41,000 parr. The project also removes 7 acres of predator habitat.

The majority of funding will go to implementation of on the ground restoration of the habitat. Part 

of the funding will go towards required environmental permitting and compliance. Phases II+ will 

leverage the deliverables produced from Phase I, which has already been funded by the 2018 CDFW 

FRGP program. Future funding will provide post-project evaluation to inform the SIT DSM in 

collaboration with the SIT.

Failure to implement the project will continue the decline of native salmonid populations and waste 

CDFW FRGP program grant money.

There are no known stakeholder objections, and the landowner, The City of Oakdale, is an 

enthusiastic partner, and a 2018 CDFW FRGP grant recipient for the design and engineering of the 

project. Funding this charter will continue to recruit more willing landowners to participate in 

restoration projects, especially since the project will occur in a popular public park and include a 

valuable outreach/education component.

Data Management

The PMT Data Steward will coordinate with external partners and biannually with the CVPIA Data 

Manager on the transmission of long-term monitoring and other pertinent data defined by the SIT 

and the PMT per the 2020 Data Guidance.

Field data will be recorded on data sheets or directly into a recording device/computer and 

transferred into a computer spreadsheet or database. The PMT Data Steward will coordinate with 

the CVPIA Data Manager on the transmission of relevant and pertinent data defined by the SIT and 

the PMT per the 2020 Data Guidance. Field data, analyses, and reports will be stored and backed up 

on a PMT computer/server.

Short-term objectives specific monitoring will include biological monitoring for fish and macroinvertebrates as deemed appropriate by the PMT. These will likely be similar in nature to postproject investigations conducted on previous projects, modified to enhance understanding based on 

current and past evaluations.

Objectives include providing rearing habitat for up to 41,000-155,000 Chinook Salmon fry and 

12,000-41,000 parr the first spring following construction via floodplain lowering. These values were 

obtained based on territory size estimates from the Emigrating Salmonid Habitat Estimation 

(ESHE) model (https://fishsciences.shinyapps.io/sacramento-eshe/). Objectives also include 

providing spawning habitat for up to 2,200 redds (based on an assumption that each redd requires 

approximately 12.4 m2 (https://flowwest.shinyapps.io/rearing-habitat/).

The project does not require long-term trend monitoring. Many of these projects are necessary to 

provide a detectable trend at the Caswell RST site. Confidence intervals at the Caswell RST are often 

high (>4,000 juvenile Chinook), resulting in a low ability to detect restoration results. Given in-river 

survival estimates of 0.9446 per river mile (Stanislaus SEP Model), only 1,352 of the starting (10,522) 

juveniles should pass the Caswell RST. The median survival estimate at Caswell for 1996-2012 is
152

105,821 juveniles (range 8,000 to 2,000,000). Assuming a 20% change is detectable, ~20,000 more 

juveniles would have to pass Caswell, requiring ~15 more 5 acre projects. Of course, this assumes 

that large changes in flow are not the primary factor influencing juvenile passage at Caswell.

Are performance metrics related to or derived from the DSM or means objectives (Peterson, Coarse 

Resolution Model Report, 2014), and integrated into the monitoring plan?

Project monitoring will utilize appropriate standardized protocols and where available, any CVPIA 

data management standards, including submittal to Center for Data Management when available. 

Post-project monitoring should offer an opportunity to calibrate both juvenile growth and survival 

parameters (higher vs lower gradient) and will be conducted in collaboration with SIT to ensure 

maximum usefulness to the DSM.

Performance metrics include amount of juvenile rearing habitat which relates to juvenile abundance, 

life history diversity, and productivity. Costs are based on recent similar projects and are offset by an 

existing grant providing engineered design.

Risks

Risk Likelihood Impact

Landowner backs out 1 2

Cost Estimate

Year Fund Total BOR FWS Local

2020 Local $341,036 $0 $0 $341,036

2020 CVPRF $361,400 $0 $361,400 $0

2022 CVPRF $2,374,400 $0 $2,374,400 $0

Total Cost: $3,076,836
153

Internal Agency Resources Table

Type Name Rate Frac. MU Total Agency Fund Description

2020

Design

Agreement Design $341,036 1.00 0.00 $341,036 Local Other Phase I is being funded by the 2018 FRGP, 

and will ultimately produce 100% design 

plans for the project

Environmental 

Compliance 

and Permitting

Agreement Environmental 

Compliance and 

Reporting

$175,000 1.00 0.06 $185,500 FWS CVPRF Development of environmental documents; 

submission and coordination for 

environmental permits

Monitoring

Agreement Monitoring $135,943 1.00 0.06 $144,100 FWS CVPRF Development of monitoring plan; 

continued pre project monitoring; pre 

project monitoring summary

Reporting

Agreement Reporting $30,000 1.00 0.06 $31,800 FWS CVPRF Management of project activities, including 

construction. Reporting for project 

progress and various deliverables.

2022

Construction

Agreement Construction $2,150,000 1.00 0.06 $2,279,000 FWS CVPRF Construction for restoration project; weekly 

construction summary; as-built surveys

Reporting

Agreement Reporting $90,000 1.00 0.06 $95,400 FWS CVPRF Management of project activities, including 

construction. Reporting for project 

progress and various deliverables.
154

Sacramento River Salmonid Habitat Improvement - Keswick to 

Red Bluff

Implements the top priority habitat improvements along the Sacramento River between Keswick 

and Red Bluff.

DCN: 20FHRP004

Classification: Habitat Improvement, Habitat Restoration

Location: Sacramento River, Sacramento Upper Mainstem

Funding Years: 2019 - 2025

Benefits Start Year: 2021

Priority: SIT FY2020 Tech Memo:

- Increase perennially inundated juvenile habitat, Sacramento River above the 

American River confluence

- Increase seasonally inundated juvenile habitat at 2-yr freq., Sacramento 

River above American River confluence

- Increase spawning habitat, Upper Sacramento River

Partners: City of Anderson, CA, City of Red Bluff, City of Redding, CSU Chico, 

Glenn Colusa Irrigation District, Golden Gate Salmon Association, Pacific 

States Marine Fisheries Commission, RD 108, River Partners, Sacramento 

River Forum, Trout Unlimited, USBR, USFS, USFWS, Western Shasta 

Resource Conservation District, CDFW, CDWR

Related Programs: See Partners

Authority

Provision Percentage

(b)(13) Gravel 100.0%

Metrics

Name Value Units Comment

Shea Adult Chinook 1,105 # fish territory estimates consistent with SIT salmon 

lifecycle model inputs

Shea Juvenile Chinook 189,800 # fish territory estimates consistent with SIT salmon 

lifecycle model inputs

Kapusta 1B Juvenile 

Chinook

81,561 # fish territory estimates consistent with SIT salmon 

lifecycle model inputs

Kapusta Island Juvenile 

Chinook

130,827 # fish territory estimates consistent with SIT salmon 

lifecycle model inputs

Battle Creek Levee juvenile 

Chinook

112,500 # fish Add a zero to the end of the fish number.

territory estimates consistent with SIT salmon 

lifecycle model inputs

Anderson River Park 

Juvenile Chinook

331,710 # fish territory estimates consistent with SIT salmon 

lifecycle model inputs
155

Name Value Units Comment

Reading Island Phase II 386,380 # fish territory estimates consistent with SIT salmon 

lifecycle model inputs

South Cypress Juvenile 

Chinook

386,250 # fish territory estimates consistent with SIT salmon 

lifecycle model inputs

South Cypress Adult 

Chinook

1,287 # fish territory estimates consistent with SIT salmon 

lifecycle model inputs

East Sand Slough Juvenile 

Chinook

532,500 # fish territory estimates consistent with SIT salmon 

lifecycle model inputs

Deliverables

Deliverables in all years of this project will be coordinated with the CVPIA Data Manager, CVPIA 

Science Coordinator, and CVPIA Fish Resource Area Coordinator.

Date Title

May. 2020 Anderson River Park completed

May. 2020 South Cypress side channel completed if USBR approves bridge

May. 2020 Reading Island side channel completed

May. 2021 Shea Side Channel completed

May. 2021 East Sand Slough completed

May. 2022 Kapusta sites completed

Project Management Team

John Hannon (USBR-BDO)

Jim Earley (USFWS – Red Bluff)

Mike Berry (DWR)

Ruth Goodfield (NMFS)

Paul Zedonis (USBR-NCAO)

Narrative

Implements prioritized juvenile rearing habitat improvements in the Keswick to Red Bluff reach of 

the river. Projects are side channel enhancement and creation and floodplain expansion.

The following table describes the projects including the proposed management actions.

Project Type Rearing 

Acres

Spawning 

Acres

Total 

Juveniles

Adult 

Chinook

Top Priority

Shea Island side channel 2.5 1.7 189,800 1,105

Kapusta 1B side channel 1.1 81,561

Kapusta Island side channel 1.7 130,827

Battle Creek Levee floodplain 15.0 1,125,000

Tier 1
156

Project Type Rearing 

Acres

Spawning 

Acres

Total 

Juveniles

Adult 

Chinook

Top Priority

South Shea gravel injection 0

Anderson RP Ph 1-3 side channel 4.4 331,710

Reading Island Ph 2 side channel 5.2 386,380

South Cypress side channel 5.2 1.98 386,250 1,287

East Sand Slough side channel 7.1 532,500

Chinook potential from territory estimates consistent with SIT salmon lifecycle model inputs

Tier 2

Wyndham connect a pond 1.42 106,763

Tobiasson Island side channels 1.56 117,270

I-5 side channel 0.36 3.00 27,114 1950

Dog Island side channel 1.22 91,511

Tier 3

Cow Creek side channel 1.17 88,122

China Garden side channel 1.13 84,732

Battle Creek Floodplain floodplain 50.0 3,750,000

Jellys Ferry side channel 2.26 169,465

The project adds new juvenile rearing habitat in the upper Sacramento River to increase productivity 

and increase adult production.

All funding goes towards the high priority projects selected by the upper Sacramento River 

Restoration Interagency Advisory Technical Group (IATG). Prioritized based on biological benefit, 

engineering feasibility, and cost effectiveness.

The project increases Chinook production based on DSM priority actions.

The interagency group and stakeholders, IATG, have been developing these projects over the past 

four years. The impact of a delay, reduced or non-funding of this project would be loss in 

momentum and reduced potential to double anadromous fish production on the largest river in the 

Central Valley.

There are no known stakeholder objections to the project proposal

Data Management

The PMT Data Steward will coordinate with external partners and biannually with the CVPIA Data 

Manager on the transmission of long-term monitoring and other pertinent data defined by the SIT 

and the PMT per the 2020 Data Guidance.

Field data will be recorded on data sheets or directly into a recording device/computer and 

transferred into a computer spreadsheet or database. The PMT Data Steward will coordinate with 

the CVPIA Data Manager on the transmission of relevant and pertinent data defined by the SIT and 
157

the PMT per the 2020 Data Guidance. Field data, analyses, and reports will be stored and backed up 

on a PMT computer/server.

Associated data housed by USBR Bay Delta Office and available on request.

Risks

Risk Likelihood Impact

Landowner agreements not reached 1 3

Permits not obtained 2 2

New habitat washed out 2 2

Cost Estimate

Year Fund Total BOR FWS

2020 CVPRF $4,114,450 $4,114,450 $0

2020 WRR $1,000,000 $1,000,000 $0

2021 CVPRF $2,000,000 $2,000,000 $0

2022 CVPRF $5,935,550 $5,935,550 $0

Total Cost: $13,050,000
158

Internal Agency Resources Table

Type Name Rate Frac. MU Total Agency Fund Description

2020

Construction

Agreement Local nonprofit$2,000,000 1.00 0.00 $2,000,000 BOR CVPRF Additional funding to add acres improved for 

additional benefit, capacity for ~200,000 juveniles

Agreement Local nonprofit$1,000,000 1.00 0.00 $1,000,000 BOR WRR Adds to area of habitat improved to provide capacity 

for ~100,000 more juveniles

Agreement Local nonprofit$1,264,450 1.00 0.00 $1,264,450 BOR CVPRF Adds to habitat area improved to provide capacity 

for 300,000 additional juveniles.

Agreement Local nonprofit$500,000 1.00 0.00 $500,000 BOR CVPRF Feasibility analysis for Tier 2 and Tier 3 projects to 

focus on implementation in future years. Landowner 

agreements, engineering analysis.

Agreement PSMFC $350,000 1.00 0.00 $350,000 BOR CVPRF Effectiveness monitoring of habitat improvements.

Includes monitoring treatment and control sites 

before and after implementation for habitat quality 

and fish use.

2021

Construction

Agreement Local nonprofit entity$2,000,000 1.00 0.00 $2,000,000 BOR CVPRF FA agreement for planning, permitting, design, 

construction, and monitoring. May be multiple 

recipients.

2022

Construction

Labor USBR labor $200,000 1.00 0.00 $200,000 BOR CVPRF USBR biologists, resource specialists, engineers, 

surveyors working on these projects.

Agreement mod to 

2020 

recipient

$3,735,550 1.00 0.00 $3,735,550 BOR CVPRF

Agreement Local nonprofit$2,000,000 1.00 0.00 $2,000,000 BOR CVPRF Continues to implement high priority habitat 

improvements.
159

Sacramento River Salmonid Habitat Improvement - Red Bluff to 

Feather River

Implements top priority habitat improvements between Red Bluff and Feather River

DCN: 20FHRP005

Classification: Habitat Improvement, Habitat Restoration

Location: Sac River - Red Bluff to Feather River, Sacramento Lower Mainstem

Funding Years: 2019 - 2024

Benefits Start Year: 2021

Priority: SIT FY2020 Tech Memo:

- Increase perennially inundated juvenile habitat, Sacramento River above the 

American River confluence

- Increase seasonally inundated juvenile habitat at 2-yr freq., Sacramento 

River above American River confluence

- Adaptively manage juvenile habitat restoration to allow the evaluation of 

the effect of habitat restoration on wild juvenile Chinook salmon survival in 

the Sacramento River

Partners: City of Red Bluff, CSU Chico, Glenn Colusa Irrigation District, Golden Gate 

Salmon Association, Pacific States Marine Fisheries Commission, RD 108, 

River Garden Farms, River Partners, Sacramento River Forum, Trout 

Unlimited, CDFW, CDWR

Related Programs: CDWR, NMFS

Authority

Provision Percentage

(b)(1) 100.0%

Metrics

Name Value Units Comment

La Barranca juvenile 

Chinook

350,839 # fish territory estimates consistent with SIT salmon lifecycle model 

inputs

McClure juvenile 

Chinook

250,808 # fish territory estimates consistent with SIT salmon lifecycle model 

inputs

Foster juvenile 

Chinook

196,579 # fish territory estimates consistent with SIT salmon lifecycle model 

inputs

Mooney juvenile 

Chinook

59,313 # fish territory estimates consistent with SIT salmon lifecycle model 

inputs

Blethen juvenile 

Chinook

194,322 # fish territory estimates consistent with SIT salmon lifecycle model 

inputs

Altube juvenile 

Chinook

111,847 # fish territory estimates consistent with SIT salmon lifecycle model 

inputs

Flynn juvenile 

Chinook

67,786 # fish territory estimates consistent with SIT salmon lifecycle model 

inputs
160

Name Value Units Comment

Blackberry juvenile 

Chinook

176,243 # fish territory estimates consistent with SIT salmon lifecycle model 

inputs

Oklahoma juvenile 

Chinook

128183 # fish territory estimates consistent with SIT salmon lifecycle model 

inputs

Rearing Habitat 3 acres 2.68 acres is the average habitat value of all the projects 

listed here. Range = 0.79 - 4.68 acres.

Deliverables

Deliverables in all years of this project will be coordinated with the CVPIA Data Manager, CVPIA 

Science Coordinator, and CVPIA Fish Resource Area Coordinator.

Date Title

Oct. 2021 First site permitted and ready to construct

Mar. 2022 additional sites depend on level of funding allocated

Mar. 2022 First site constructed

Project Management Team

John Hannon (USBR-BDO)

Jim Earley (USFWS – Red Bluff)

Mike Berry (DWR) Ruth Goodfield (NMFS)

Paul Zedonis (USBR-NCAO)

Narrative

Salmonid habitat improvement projects in the upper mid reach of the Sacramento River - Red Bluff 

to Feather River. Types are side channel habitat improvement and creation, floodplain expansion, 

and rock revetment removal.

All of these are side channel projects at sites of historic channels now cut off from flows at the most 

habitat limiting low flow levels. Activities are excavation of material to create perennial rearing 

habitat and additions of woody material and boulders where appropriate. Incrementally inundated 

floodplain habitat will be incorporated at sites where the opportunity arises. Projections of fish 

numbers are territory estimates consistent with SIT salmon lifecycle model inputs.

The following table describes the projects including the proposed management actions.

Project Rearing Acres Juveniles

Tier 1

Mooney 0.79 59,313

Blethen Island 2.59 194,342

Blackberry Island 2.35 176,243

Tier 2

La Barranca 4.68 350,839

Oklahoma Island 1.71 128,183
161

Project Rearing Acres Juveniles

McClure Creek 3.34 250,808

Foster Island 2.62 196,579

Tier 3

Altube Island 1.49 111,847

Flynn Unit 0.90 67,786

The projects increase juvenile rearing habitat productivity in the middle Sacramento River reach to 

move closer to the CVPIA doubling goal.

In FY19 the IATG expanded the scope of its proposed activities, based on SIT priorities, to 

working in this reach of the river. The 3406(b)(1) authority applies below Red Bluff on the 

Sacramento River. Coordination has occurred within the interagency group and needs to be 

expanded to the local communities and counties close to the projects.

There are no known objections. Landowner (USFWS) access may be an issue. Conflicts will be 

addressed by the appropriate restoration team members as they arise.

Data Management

The PMT Data Steward will coordinate with external partners and biannually with the CVPIA Data 

Manager on the transmission of long-term monitoring and other pertinent data defined by the SIT 

and the PMT per the 2020 Data Guidance.

Field data will be recorded on data sheets or directly into a recording device/computer and 

transferred into a computer spreadsheet or database. The PMT Data Steward will coordinate with 

the CVPIA Data Manager on the transmission of relevant and pertinent data defined by the SIT and 

the PMT per the 2020 Data Guidance. Field data, analyses, and reports will be stored and backed up 

on a PMT computer/server.

Data housed at USBR Bay Delta Office and CVPIA master database.

Risks

Risk Likelihood Impact

Lack of landowner agreements 2 2

Unable to get permits 2 2

Cost Estimate

Year Fund Total BOR FWS

2020 CVPRF $3,950,000 $3,950,000 $0

2020 WRR $1,000,000 $1,000,000 $0

2021 CVPRF $2,600,000 $2,600,000 $0

2022 CVPRF $2,000,000 $2,000,000 $0

Total Cost: $9,550,000
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Internal Agency Resources Table

Type Name Rate Frac. MU Total Agency Fund Description

2020

Implementation

Agreement Local non-profit $1,200,000 1.00 0.00 $1,200,000 BOR CVPRF Permitting, design, implementation, and monitoring 

of second high priority project among Mooney, 

Blethen, and Blackberry Island.

Labor USBR labor $100,000 1.00 0.00 $100,000 BOR CVPRF USBR biologists, resource specialists, engineers, 

surveyors working on the project.

Agreement Local non-profit $1,400,000 1.00 0.00 $1,400,000 BOR CVPRF Design, permitting, and implementation of top 

priority project among Mooney Unit, Blethen Island, 

and Blackberry Island.

Agreement Local non-profit $1,000,000 1.00 0.00 $1,000,000 BOR WRR Adds additional habitat improvement work at tier 1 

priority sites.

Agreement Local non-profit $600,000 1.00 0.00 $600,000 BOR CVPRF Third site from among Mooney, Blethen, and 

Blackberry Island. Includes permitting, design, 

implementation, monitoring.

Agreement Local non-profit 

concerned with 

fish and wildlife 

enhancement

$650,000 1.00 0.00 $650,000 BOR CVPRF Includes the up-front surveys, landowner 

coordination, and engineering feasibility analysis for 

top priority habitat improvement sites in this reach.

Tier 1 = Mooney, Blethen, Blackberry, Tier 2 = La 

Barranca , Oklahoma Island, McClure Creek, Foster 

Island

Tier 3 = Altube Island, Flynn Unit

2021

Implementation

Agreement Local non-profit $2,600,000 1.00 0.00 $2,600,000 BOR CVPRF Continued implementation of top priority habitat 

projects.

2022

Implementation

Labor Local non-profit $2,000,000 1.00 0.00 $2,000,000 BOR CVPRF Continues to implement highest priority habitat 

improvement projects.
163

Sacramento River Tributaries Non-Natal Rearing Evaluation and 

Restoration

Confirm current non-natal use and existing/potential habitat in tributaries along upper Sac River. 

Identify access issues. Plan and implement restoration on tributaries.

DCN: 20FHRP006

Classification: Research, Monitoring, Habitat Improvement, Habitat Restoration

Minor Sacramento Tributaries

Funding Years: 2020 - 2024

Benefits Start Year: 2021

Priority: SIT FY2020 Tech Memo:

- Winter Run Chinook - Increase access to non-natal tributaries to open 

habitat in Upper and Upper Mid Sacramento Aug-March

All Chinook Runs and Steelhead: Adaptively manage juvenile habitat 

restoration to allow the evaluation of the effect of habitat restoration on wild 

juvenile Chinook Salmon survival in the Sacramento River;

- Steelhead: Adaptively manage tributary flows, habitat, and/or temperatures 

to increase the frequency of anadromy

Partners: NMFS, NRCS, Pacific States Marine Fisheries Commission, River Partners, 

Sacramento River Forum, Tehama County RCD, Western Shasta Resource 

Conservation District, CDFW, Family Water Alliance

Related Programs: Sacramento River Restoration Interagency Advisory Technical Group 

(IATG)

Authority

Provision Percentage

(b)(13) 100.0%

Metrics

Name Value Units Comment

Non-natal habitat 

increase

56,000 square feet Juvenile rearing habitat increased due to 

restoration 

Habitat assessment 20 number of 

reports

20 of the most promising streams identified by 

Maslin (1999) for non-natal rearing.

Juvenile fish habitat use 5 number of 

fish

Number of fish per square meter which is the 

density of fish directly observed using restored 

fish habitat.

Deliverables

Deliverables in all years of this project will be coordinated with the CVPIA Data Manager, CVPIA 

Science Coordinator, and CVPIA Fish Resource Area Coordinator.
164

Date Title

Sep. 2020 Completed study plan

Sep. 2021 Completed annual study report

Sep. 2022 Preliminary restoration project identification

Sep. 2022 Completed annual study report

Mar. 2023 Completed environmental documents and permits, final design, and bid 

documents

Sep. 2023 Completed conceptual designs

Sep. 2023 Completed annual study report 

Sep. 2025 Completed restoration actions

Sep. 2026 Final report

Project Management Team

Tricia Bratcher, CDFW

Matt Johnson, CDFW

Narrative

Non-natal rearing of juvenile Chinook salmon (Oncorhynchus tshawytscha) was documented in several 

intermittent tributaries to the Sacramento River by Maslin and others between 1996 and 1999. Their 

data showed that juvenile chinook rearing in non-natal tributaries grew faster and were heavier for 

their length than those rearing in the mainstem Sacramento River. Faster growing fish smolt earlier, 

and may enter the delta earlier in the year, before low water and pumping degrade rearing habitat. 

Optimal rearing conditions in the tributaries exist from approximately December through March. By 

April, conditions may be less favorable as temperatures rise to intolerable levels, and piscivorous 

fishes enter tributaries to spawn. Juvenile chinook entering the tributaries early in the year, such as 

winter and spring run, probably derive the most benefit from tributary rearing.

This project will revisit at least 20 of the tributaries (contingent on access permission) thought to be 

of highest use and potential for restoration by Maslin (1999) in the Upper Sacramento River 

between Keswick Dam and the Tehama/Butte County boundary to establish (1) extent of juvenile 

fish use by run and/or species, ; (2) barriers to fish, including impacts of stage levels on the 

inundation of tributaries by the Sacramento River; (3) potential restoration actions; (4) restoration 

action; and (5) associated monitoring. The Project will look primarily at existing habitat but will also 

verify juvenile fish presence/use at appropriate times, as it has been at least 20 years since the Maslin 

study. Beyond using the info provided by Maslin, we will assess a tributary’s “potential” (based upon 

habitat data collection, stage levels/connectivity to the River, streamflow, acres/miles of potential 

habitat creation, etc.) for creating additional habitat and prioritize restoration actions. This has not 

been done before on this scale. If a site/stream is warranted, this will be followed by conceptual 

designs; final designs; env. documents and permits; construction; and post-project monitoring.

The project directly addresses CVPIA/Final Rest. Plan and 2014 NMFS Recovery goals and actions 

for the Upper Sacramento River AND Miscellaneous tributaries by identifying baseline non-natal 

rearing levels and how habitat improvement can increase juvenile fish use of tributaries/increase 

production. The project will increase rearing habitat for all 4 races of Chinook, and steelhead, and it 

supported by the SIT and the NMFS Recovery Plan. It will gather information needed to further 
165

refine the DSM and directly addresses FY20 SIT/CT priorities for juvenile rearing (All Runs, Table 

18 in the SIT memo, rearing habitat) and winter-run Chinook non-natal rearing needs (Table 18, SIT 

memo), as well as contribute to the body of knowledge on juvenile use for all runs and steelhead 

(SIT memo, Table 15). The project will address metric data needs in the realm of juvenile non-natal 

rearing and health/outmigration success. It will have short-term objective monitoring measures tied 

to restoration actions but also will provide long-term objective monitoring needs relative to 

successful management of instream habitat and inundation levels needed on tributaries (from 

Sacramento River) to provide for juvenile non-natal rearing. It can be used to further understand if 

and where limiting factors exist for juvenile fish populations as they migrate downstream and how 

they can be improved. The impacts of NOT doing the proposal will be a loss of opportunity to 

restore critical habitat for juvenile fish and the uncertainty of what restoration actions are needed, 

why, and where. There are no known stakeholder objections to the project. Collaboration via the 

CVPIA b(13) process on the Upper Sacramento River has created a cooperative working 

relationship on Upper Sacramento River restoration, as has the decades of monitoring by USFWS, 

CDFW, and others on the River.

Data Management

The PMT Data Steward will coordinate with external partners and biannually with the CVPIA Data 

Manager on the transmission of long-term monitoring and other pertinent data defined by the SIT 

and the PMT per the 2020 Data Guidance.

Field data will be recorded on data sheets or directly into a recording device/computer and 

transferred into a computer spreadsheet or database. The PMT Data Steward will coordinate with 

the CVPIA Data Manager on the transmission of relevant and pertinent data defined by the SIT and 

the PMT per the 2020 Data Guidance. Field data, analyses, and reports will be stored and backed up 

on a PMT computer/server.

A study plan incorporating adaptive management principles is one of the deliverables. Performance 

metrics are derived from SIT priorities, as well as the data needed for and/or associated with the 

Decision Support Model effort. “Naturally produced juveniles per natural spawner” and “juvenile 

diversity index” (Peterson 2014) will be used to refine juvenile rearing observations, densities, etc.

The project will contribute to information needed on juvenile biomass (SIT FY20 memo) as it 

relates to habitat quantities—previous work on Clear Creek has quantified the effect of certain 

habitat improvement changes.

The project has both short-term objective-specific monitoring elements by providing real time input 

on habitat condition, as well as long-term trend monitoring elements, as the project can be used to 

assess trends if/when habitat expansion occurs via a change in operations, restoration, etc. Restored 

tributaries can also be assessed in the future as it relates to overall fish production.

Program Priority and Comments (Page 1 on the charter)

AFRP Final Rest. Plan, Upper Sacramento River Action 1 (CVP flow regulation/instream flow 

needs).

AFRP Final Rest. Plan, Upper Sacramento River Action 2 (Develop flow regime to address 

dewatering and stranding).

AFRP Final Rest. Plan, Misc. tributaries, Action 1 (expand usable rearing habitat)
166

AFRP Final Rest. Plan, Misc. tributaries, Action 5 (replace bridge/ford combinations to expand 

usable habitat)

AFRP Final Rest. Plan, Misc. tributaries, Action 6 (Install siphons on irrigation systems to expand 

habitat)

All Project documents will be stored at www.fws.gov/redbluff/

Risks

Risk Likelihood Impact

Access/willingness of owners (Family Water Alliance offered 

to partner on this)

2 2

Cost Estimate

Year Fund Total BOR FWS

2020 CVPRF $397,500 $0 $397,500

2021 CVPRF $0 $0 $0

2022 CVPRF $262,000 $0 $262,000

2023 CVPRF $0 $0 $0

2024 CVPRF $2,606,000 $0 $2,606,000

Total Cost: $3,265,500
167

Internal Agency Resources Table

Type Name Rate Frac. MU Total Agency Fund Description

2020

Inventory/

Reconnaissance

Agreement 3 year 

agreement

$397,500 1.00 0.00 $397,500 FWS CVPRF Fisheries, geomorphology and engineering 

data collection for three years.

2022

Design

Agreement Agreement $156,000 1.00 0.00 $156,000 FWS CVPRF Restoration action designs

Environmental 

Compliance and 

Permitting

Agreement Agreement $106,000 1.00 0.00 $106,000 FWS CVPRF Environmental documents and permits

2024

Implementation

Agreement Agreement $2,500,000 1.00 0.00 $2,500,000 FWS CVPRF Implementation of restoration actions such 

as culvert replacement, barrier removal, or 

habitat enhancement.

Monitoring

Agreement Performance 

evaluation 

study

$106,000 1.00 0.00 $106,000 FWS CVPRF Evaluation of restoration actions based on 

fish habitat use, geomorphology, stream 

flow, passage, or riparian vegetation, 

depending on the action.
168

Stanislaus River: Spawning, Side-Channel, and Floodplain Habitat 

Enhancement Project

Complete design for 2 restoration project site(s), followed by design/planning/implementation to 

restore spawning/rearing (side-channel) salmon habitats.

DCN: 20FHRP009

Classification: Habitat Improvement, Habitat Restoration

Location: Lower Stanislaus River, Stanislaus River

Funding Years: 2019 - 2024

Benefits Start Year: 2020

Priority: SIT FY2020 Tech Memo:

- Increase spawning habitat, Stanislaus River (spring-run)

- Maintain spawning habitat in the CVP streams (all-runs)

- Increase perennially inundated juvenile habitat, Stanislaus River (fall-run).

Partners: Cramer Fish Sciences

Related Programs: CALFED, CVPIA b1, CVPIA b13, NMFS-RP, NMFS-RPAs

Authority

Provision Percentage

(b)(13) 100.0%

Metrics

Name Value Units Comment

Gravel Augmentation 8,300 cubic yards 1.5 acres were excavated at HB 1, which yielded 

89,775 cubic feet of spawning gravel that was placed 

in the main channel. We assumed that at least 3.7 

acres will be excavated which is 2.5 times the acreage 

at HB 1, so multiplied HB 1 gravel by 2.5 (i.e., 89,775 

cubic feet * 2.5 = 224,437.5 cubic feet/27 = 8,312.5 

cubic yards, rounded down). The calculation assumes 

similar excavation depth and similar composition of 

excavated material as HB 1. The expected amount of

material for placement will be refined through 

development of conceptual plans for each site, and 

the design for the selected site.

Habitat Restored (Side 

Channel)

0.75 acres 2,200 ft long X 15 ft wide = 0.75 acres that could 

support 56,208 fry.

Habitat Created -

Juvenile Rearing (Inchannel)

0.70 acres About 0.28 acres of rearing bench habitat was 

created at HB 1 by placing gravel along the stream 

margin. Given the greater area of expected 

excavation, this would translate to an expected 0.7 

acres (0.28*2.5) of juvenile rearing habitat created in 

the main channel that could support 52,461 fry.
169

Name Value Units Comment

Habitat Restored -

Floodplain 

1.0 acres This is a minimum based on preliminary conceptual 

designs. The actual area will be determined through 

the design and permitting process with the goal of

maximizing the amount of suitable spawning gravel 

yielded and perennial rearing habitat created. Based 

on SIT assumption of 27% suitability of the total 3.7 

floodplain acres created, this project is expected to 

yield 1 acre (4047 m^2) of suitable floodplain habitat. 

The average territory size for fry identified by the SIT

is 0.054 m^2/fry so the floodplain created by this 

project would be expected to support 75,944 fry.

Gravel Augmentation 

Site

1 number of 

actions

We anticipate being able to incorporate a permanent 

gravel augmentation site in the final design. 

Reclamation desires to add gravel, and to date these 

efforts have largely been limited to just below 

Goodwin Dam due to accessibility (private lands and 

road restrictions).

Spawning Habitat 100 percentage 

of fish

As described for the previous metric, we expect 

~225,000 cubic feet of spawning gravel to be 

generated by excavation to generate perennial sidechannel and seasonal floodplain rearing habitats. If 

we assume 5 ft. of material may be needed to get to 

appropriate spawning depths, this equates to 

~45,000 sq. ft. (1 acre) of spawning habitat created 

by the proposed project. Since not all available 

habitat would be expected to be used, assumed 50% 

occupancy so ~22,500 sq. ft. Each spawning pair 

needs ~216 sq. ft. (Burner 1951), so this restoration 

effort is expected to provide habitat for at least 100 

pairs of Chinook salmon. NOTE: These calculations 

were for the main channel (assumed no new 

spawning in the side channel) so this is a 

conservative estimate from that perspective. In the 

side channel alone at HB 1 we saw 20-40 redds per 

year. Redd surveys have been conducted annually by 

FISHBIO since 2007 through funding provided by Tri

Dam and the Oakdale and South San Joaquin 

Irrigation Districts (Districts). This long-term 

monitoring effort provides more than 10 years of 

baseline data to describe use of the proposed project 

area prior to gravel addition, spawning distribution, 

and rates of redd superimposition over a broad 

range of spawner abundance. Continued monitoring 

will track changes in use of the project area and 

potential changes in spawning distribution and rates 

of redd superimposition.
170

Deliverables

Deliverables in all years of this project will be coordinated with the CVPIA Data Manager, CVPIA 

Science Coordinator, and CVPIA Fish Resource Area Coordinator.

Date Title

Sep. 2023 Annual Summary Report - Activity and Fiscal Update

Sep. 2022 Annual Summary Report - Activity and Fiscal Update

Sep. 2024 Annual Summary Report - Activity and Fiscal Update

Sep. 2024 Final Report

Jan. 2020 Report - Restoration Site Conceptual Design(s)

Jun. 2020 Construction Design - 60% 

Jun. 2021 Construction Design - Basis of Design

Jun. 2021 Permit Report - Completed Permits for 2021

Feb. 2022 Summary Report - Construction ('as-built')

Jun. 2021 Report - Restoration Monitoring Plan

Dec. 2024 Final Report

Project Management Team

J.D. Wikert – USFWS

John Hannon – John Hannon

Andrea Fuller – FISHBIO

Chris Hammersmark – CBEC

Narrative

The project expands the successful Honolulu Bar Floodplain Enhancement Project offering longterm spawning and rearing habitat benefits for Chinook salmon and steelhead. Phase I restored 2.4 

acres of salmonid spawning and rearing habitat in 2012. We will develop conceptual plans for Phase 

II (upstream and on the opposite bank from HB I) and Lovers Leap (about 3 miles upstream), two 

of the largest and most accessible projects identified in the spawning reach of the Stanislaus River. 

The project will create spawning, perennial rearing (in-channel and side-channel), and seasonal 

rearing (floodplain) habitat under contemporary flows. Material excavated will be used onsite for 

instream restoration, saving money and reducing air pollution, greenhouse gas, fossil fuel use, and 

road damage. Project objectives include: increasing spawning habitat (> 1 acre); creating perennial 

side-channel rearing habitat; restoring functional floodplain (>3.7 acres); and restoring native 

vegetation. We plan to include access for gravel augmentation in perpetuity. Benefit to cost will be 

determined for each site and the highest value project will be implemented. The conceptual design 

for the alternate site will be available for future implementation via CVPIA or other funding sources.

The project addresses FY20 Priorities for Chinook salmon (maintain spawning habitat in CVP 

streams), Spring-run (Increase spawning habitat, Stanislaus River), and Fall-run (increase perennially 

inundated juvenile habitat in the Stanislaus River). The project also supports NMFS Recovery Plan 

actions, the AFRP FRP (Stan A2), and OCAP BO RPAs. It addresses the fundamental objectives of 

abundance, productivity, life history diversity, and spatial structure by increasing spawning habitat, 

which is currently limiting, and by increasing perennial and seasonal rearing habitats for successful 
171

juvenile rearing. In-channel restoration will reduce available habitat for non-native predatory fish. As 

noted in the metrics section, we anticipate a minimum of 8,300 cy of gravel added to support 100 

spawning pairs of salmon. These additional spawning pairs would produce ~550,000 eggs, and 

assuming 25% egg-to-fry survival, a potential increase of ~137,5000 fry produced. The 3.7 acres of 

floodplain and 1.45 acres of perennial rearing habitat (side and main channel) could support 184,663 

fry. Totals will vary based on final design. Additionally, this restoration will benefit riparian plant and 

animal species through creating suitable elevations and seeding/replanting with native species for 

native pollinators. We have developed a monitoring plan (see Data Management) to detect physical 

and biological responses to the restored habitat. We will collaborate with the SIT to identify 

additional parameters to improve the DSM. Costs are informed by previous efforts, and nearly 2/3 

of the funding requested is for on-the-ground restoration. We anticipate long-term benefits from 

gravel augmentation, perennial side-channel, and floodplain construction, and creation of a longterm gravel augmentation access.

OID provided cost-share in the past, and we are pursuing non-CVPIA funds for this project, but do 

not yet have a firm commitment of funds. The majority of monitoring (for cumulative population 

level effects) has been, and is expected in the future to be, provided by ongoing annual agreements 

between FISHBIO and the Districts for lifecycle monitoring. This ongoing monitoring program 

includes redd surveys that will document the number of spawning pairs using the added gravel. The 

program also includes weir and rotary screw trap monitoring to inform stock-recruit analyses to 

quantify cumulative response to management actions.

Data Management

The PMT Data Steward will coordinate with external partners and biannually with the CVPIA Data 

Manager on the transmission of long-term monitoring and other pertinent data defined by the SIT 

and the PMT per the 2020 Data Guidance.

Field data will be recorded on data sheets or directly into a recording device/computer and 

transferred into a computer spreadsheet or database. The PMT Data Steward will coordinate with 

the CVPIA Data Manager on the transmission of relevant and pertinent data defined by the SIT and 

the PMT per the 2020 Data Guidance. Field data, analyses, and reports will be stored and backed up 

on a PMT computer/server.

CVPIA data reporting and sharing guidelines will be followed as applicable. Project designs and asbuilt survey results will be included in a basis of design report prepared by cbec. Data from preproject surveys and post-project monitoring will be entered into a database and stored on a 

computer and backed up to a server within the relevant consulting firm. All data will be shared with 

the Bureau of Reclamation Bay Delta Office and US Fish and Wildlife Service Lodi Office.

Short-term, objective-specific monitoring is planned to detect physical and biological responses to 

the restored habitat that can inform the DSMs. To quantify the success of the project in meeting 

physical design criteria, we will implement: as-built survey of implemented project; continuous water 

level and temperature monitoring; transect and longitudinal profile surveys or topographic surveys in 

years following implementation; and surficial sediment characterization. The quantitative objective is 

to ensure the project was built as designed and is providing the desired habitat types and quality, and 

to allow the correlation of physical condition to fish utilization. Vegetation will be monitored with 
172

visual observations and permanent photo points to document plant development metrics (e.g., 

number of species per plant community type; percent survival by species; and percent absolute 

cover).

The quantitative objective is to recruit 100 spawning pairs annually, as measured during fall redd 

surveys. Redd surveys have been conducted annually by FISHBIO since 2007 through funding 

provided by Tri Dam, OID, and SSJID. This long-term monitoring effort provides more than 10 

years of baseline data to describe use of the proposed project area prior to gravel addition, spawning 

distribution, and rates of redd superimposition over a broad range of spawner abundance. 

Continued, in-kind redd surveys conducted as part of the Districts’ lifecycle monitoring program will 

document increased use of the project area and potential changes in spawning distribution and rates 

of redd superimposition.

The District’s lifecycle monitoring program also provides long-term counts of female spawners from 

weir operation and juvenile outmigrant abundance estimates from the Oakdale rotary screw trap. 

Used together these data provide a baseline stock-recruit relationship for juveniles produced per 

female spawner. This relationship reflects habitat availability and suitability, and currently indicates 

that there is not enough spawning habitat to support the CVPIA doubling goal. Continued, in-kind 

rotary screw trap and weir monitoring will provide the data to evaluate changes in the stock-recruit 

relationship from the collective implementation of all habitat restoration and other actions over 

time. While the project will contribute to increasing juvenile production at the population level, the 

project-specific contribution is not likely to be detected in the stock-recruit analysis given that other 

actions are expected to be implemented over the next several years, many years are needed to 

confidently detect change, and the expected change in juvenile production may not be large enough 

to detect given the confidence intervals surrounding the rotary screw trap estimates. The ability to 

detect a response from restoration may also be affected by the number of escaping adults observed. 

Presence and relative abundance of juvenile Chinook salmon and steelhead using the newly created 

side-channel and floodplain areas will be documented by direct sampling (remote cameras, snorkel 

surveys, seining, electrofishing, fyke nets) in. As these will be newly created, baseline usage of these 

locations is zero. Invertebrate assemblage monitoring will be conducted with objective is to quantify 

a response in the salmonid food resources on the floodplain.

Risks

Risk Likelihood Impact

Permitting 1 2

Landowner Coordination 1 2

Cost Estimate

Year Fund Total BOR FWS

2020 CVPRF $530,530 $0 $530,530

2021 CVPRF

2022 CVPRF $1,235,960 $0 $1,235,960

Total Cost: $1,766,490
173

Internal Agency Resources Table

Type Name Rate Frac. MU Total Agency Fund Description

2020

Administration

Agreement Agreement $20,000 1.00 0.06 $21,200 FWS CVPRF

Design

Agreement Agreement - Conceptual 

Design for Project

$210,000 1.00 0.06 $222,600 FWS CVPRF

Environmental 

Compliance and 

Permitting

Agreement Agreement - Permitting $237,000 1.00 0.06 $251,220 FWS CVPRF

Reporting

Agreement Agreement - Reporting $33,500 1.00 0.06 $35,510 FWS CVPRF

2022

Administration

Agreement Agreement $30,000 1.00 0.06 $31,800 FWS CVPRF

Construction

Agreement Agreement - Construction $1,007,000 1.00 0.06 $1,067,420 FWS CVPRF

Monitoring

Agreement Agreement - Monitoring $97,000 1.00 0.06 $102,820 FWS CVPRF

Reporting

Agreement Agreement - Reporting $32,000 1.00 0.06 $33,920 FWS CVPRF
174

Tuolumne River: River Mile 44 Spawning and Rearing Habitat 

Restoration

Tuolumne River - River Mile 44 Spawning and Rearing Habitat Restoration. Project consists of 

floodplain grading, floodplain reconnection, gravel processing, and in-channel gravel injection using 

processed floodplain material.

DCN: 20FHRP001

Classification: Habitat Improvement, Habitat Restoration

Location: Bobcat Flat East, Tuolumne River

Funding Years: 2015 - 2020

Benefits Start Year: 2016

Priority: This on-going project will be complete in 2020. It follows the successful 

Bobcat Flat restoration project immediately downstream and with the same 

project partners. The earlier project has shown significant use by adult and 

juvenile salmonids during spawning and rearing periods and provides highly 

productive floodplain habitat for juvenile salmonids.

Partners: Tuolumne River Conservancy

Related Programs: NMFS-RP, CVPIA b1

Authority

Provision Percentage

(b)(1) 100.0%

Metrics

Name Value Units Comment

Floodplain Improvement 3 acres Preliminary conceptual design indicates 

approximately 3 acres of improved floodplain 

habitat.

Juveniles utilizing 

reconnected floodplain 

rearing habitat

25 percentage 

of fish

We anticipate increasing floodplain access to 

25% of the local production.

Adults utilizing improved 

spawning habitat

50 percentage 

of fish

We anticipate increasing spawning habitat 

availability by 25% and documenting a 50% 

increase in spawning use in the project reach.

Riparian Corridor 

Improvements

1 miles Placeholder; awaiting designs

Deliverables

Deliverables in all years of this project will be coordinated with the CVPIA Data Manager, CVPIA 

Science Coordinator, and CVPIA Fish Resource Area Coordinator.
175

Date Title

Jun. 2017 Environmental Documents and permits

Jun. 2017 Project Designs

Sep. 2018 Construction Summary Report

Sep. 2020 Annual Report 

2020 Narrative:

An additional $53,000 is requested to complete environmental permitting. Costs for permitting have 

expanded considerably over recent years. No CVPIA funding is sought for implementation.

2018 Narrative:

Funding is requested to develop engineering plans and acquire necessary permits. Future funding 

will be requested to excavate an elevated floodplain to allow it to become inundated at river flows of 

1,000 to 2,500 cfs. Excavated cobble will be screened on site to produce roughly 40,000 cubic yards 

of coarse sediment mix of 1⁄4 to 4-inch material to be placed in the river channel. The project will 

enhance floodplain and river connectivity, provide off-channel rearing habitat, promote sustainable 

riparian plant communities, and restore in-stream salmonid spawning and rearing habitat. Estimated 

increases in habitat resulting from this project include 3 acres of floodplain and four acres of instream spawning and rearing habitat.

This project has been developed based on the successful Bobcat Flat Restoration Project 

(immediately downstream) and is on property owned by the same entities. The landowners and local 

neighbors are extremely supportive of these efforts and are actively seeking additional funding and 

in-kind support to ensure high quality projects are completed and monitored.

Links to CVPIA Core Team FY17 priorities:

- Fall-run Chinook: Based on the priorities identified by the SIT, the Core Team agrees that the 

following are priorities for fall-run Chinook Salmon:

- Improve Juvenile Rearing Habitat - Sacramento, Yuba, Feather, American, Calaveras, Mokelumne, 

Merced, Tuolumne, Stanislaus and San Joaquin Rivers and the Delta;

Data Management

The PMT Data Steward will coordinate with external partners and biannually with the CVPIA Data 

Manager on the transmission of long-term monitoring and other pertinent data defined by the SIT 

and the PMT per the 2020 Data Guidance.

Field data will be recorded on data sheets or directly into a recording device/computer and 

transferred into a computer spreadsheet or database. The PMT Data Steward will coordinate with 

the CVPIA Data Manager on the transmission of relevant and pertinent data defined by the SIT and 

the PMT per the 2020 Data Guidance. Field data, analyses, and reports will be stored and backed up 

on a PMT computer/server.
176

Risks

Risk Likelihood Impact

Environmental compliance related to riparian vegetation 

removal/restoration (same process that was permitted at 

Bobcat Flat will be proposed here)

1 1

Cost Estimate

Year Fund Total BOR FWS

2016 CVPRF $137,800 $0 $137,800

2017 CVPRF $626,163 $0 $626,163

2018 CVPRF $243,800 $0 $243,800

2019 CVPRF $3,180 $0 $3,180

2020 CVPRF $53,000 $0 $53,000

Total Cost: $1,063,943
177

Internal Agency Resources Table

Type Name Rate Frac. MU Total Agency Fund Description

2016

Design

Agreement Agreement # TBD $130,000 0.45 0.06 $62,010 FWS CVPRF Design concepts will be discussed among 

agreement recipient and CDFW partners in Region 

4. Designs will be reviewed at various pre-arranged 

check-in points and will precede permit application 

submission.

Environmental 

Compliance and 

Permitting

Agreement Agreement # TBD $130,000 0.45 0.06 $62,010 FWS CVPRF Permits will be obtained once designs are 

sufficiently advanced.

Management

Agreement Agreement # TBD $130,000 0.10 0.06 $13,780 FWS CVPRF Agreement Management and Deliverables

2017

Construction

Agreement Agreement # TBD $568,000 1.00 0.06 $602,080 FWS CVPRF First year construction activities including 

floodplain grading and gravel excavation, sorting, 

and in-stream installation.

Management

Agreement Agreement # TBD $568,000 0.04 0.06 $24,083 FWS CVPRF Agreement Management

2018

Construction

Agreement Agreement # TBD $200,000 1.00 0.06 $212,000 FWS CVPRF Second and final year construction activities, 

barring unforeseen permitting delays or 

unfavorable environmental conditions.
178

Type Name Rate Frac. MU Total Agency Fund Description

Management

Agreement Agreement # TBD $200,000 0.15 0.06 $31,800 FWS CVPRF Agreement Management

2019

Management

Agreement Agreement # TBD $20,000 0.15 0.06 $3,180 FWS CVPRF Agreement Management

2020

Environmental 

Compliance and 

Permitting

Agreement Permitting $50,000 1.00 0.06 $53,000 FWS CVPRF
179

2020 Annual Work Plan Public Draft

Unfunded Charters

Central Valley Project Improvement Act

Title XXXIV of Public Law 102-575
180

Stanislaus River: Large Scale Gravel Augmentation

Conduct large-scale gravel augmentation, in Goodwin Canyon and other spawning reaches, to 

support FRCS, SRCS, and steelhead early-life histories.

Classification: Habitat Improvement, Habitat Restoration

Location: Goodwin Canyon, Stanislaus River

Funding Years: 2020 - 2025

Benefits Start Year: 2022

Priority: This proposal supports the overall goal of improving habitat to yield 

naturally reproducing self-sustaining populations. This project would support 

the following priorities identified by the SIT for FY20: 1.) Increase 

perennially inundated juvenile habitat, Stanislaus River (Fall-run Chinook) 2.) 

Maintain spawning habitat in the CVP streams (all Chinook runs) 3.) Increase 

spawning habitat, Stanislaus River (Spring-run Chinook)

Partners: USBR, CDFW, Cramer Fish Sciences, FWS, Oakdale Irrigation District

Related Programs: BDCP, CALFED, CVPIA b1, CVPIA b13, NMFS-RP, NMFS-RPAs

Authority

Provision Percentage

(b)(13) 100.0%

Metrics

Name Value Units Comment

Spawning Habitat 

Created

1500 redds/sq. 

meter

Up to 150,000 square meters could be directly 

improved from initial gravel placement. Assuming a 

redd size of 9 sq. meters this could support over 

1,500 Chinook Salmon.

fry 162037 completion Space for 162,037 additional fry to rear (@0.054 

square meter per fry).

b12: Spawning gravel 

placed cu yds

50000 cubic yards Approximately 15' depth of gravel placed in canyon 

to be dispersed by flow.

rearing habitat - fry 4 miles 4 miles of juvenile rearing habitat (6.4km)

Deliverables

Deliverables in all years of this project will be coordinated with the CVPIA Data Manager, CVPIA 

Science Coordinator, and CVPIA Fish Resource Area Coordinator.

Date Title

Dec. 2024 Final Report - Post-project Monitoring

Jun. 2021 Initial Report (Pre-project Planning): Sediment Budget

Sep. 2023 Annual 'As-Built' Report/Survey: Post Gravel Augmentation(s)

Sep. 2024 Annual 'As-Built' Report/Survey: Post Gravel Augmentation(s)
181

Date Title

Sep. 2025 Annual 'As-Built' Report/Survey: Post Gravel Augmentation(s)

Sep. 2026 Annual 'As-Built' Report/Survey: Post Gravel Augmentation(s)

Dec. 2024 Final Report - Sediment Budget

Project Management Team

FWS - (JD Wikert)

USBR (John Hannon, Elissa Buttermore) 

CFS (Rocko Brown, Jesse Anderson)

Narrative

This project will develop and implement large-scale gravel augmentation on the Stanislaus River 

below Goodwin Dam (and refreshing multiple sites downstream). The project will create additional 

spawning and rearing habitat, mitigate warm summer temperatures (through providing thermal 

refugia via hyporheic flow), and increase macroinvertebrate production. The project will develop a 

sediment budget to guide initial and future gravel injections and provide robust monitoring to

inform the SIT DSM and future project planning and design.

Small (b)(13) gravel projects in the canyon have mobilized and created spawning and rearing habitat 

downstream of injection sites. Recent monitoring regularly documents spring running Chinook 

adults and collects juveniles sized appropriately to be spring-run origin. The project offers an 

opportunity to help develop a self-sustaining spring-run Chinook population (NMFS Recovery 

Plan). The sediment budget will develop a scientific basis for gravel augmentation targets, satisfy 

stakeholder concerns related to downstream impacts, identify the residual sediment deficit, and 

develop a maintenance volume.

We will augment 50,000 cubic yards of gravel and cobble over 3-4 years using dump trucks and/or a 

sluice system as in previous projects. The project will restore up to 4 miles of instream channel, 

providing spawning area for over 1,500 Chinook pairs (0.9 m/red) and provide in-channel rearing 

for up to 2.7 million fry (0.054 m2 per fry). The project will replenish previously constructed riffles 

throughout the spawning reach. Our main effort will occur in Goodwin Canyon (colder 

temperatures, large capacity to accommodate gravel, high gradient to mobilize gravel). The project 

will address CVPIA goals (FRP A2), CVPIA Call for Proposals (Chinook: Maintain spawning 

habitat in CVP streams & Increase perennially inundated juvenile habitat in the Stanislaus River; 

Spring-Run: Increase spawning habitat, Stanislaus River; Chinook Monitoring: Juvenile tributary 

survival). The project addresses abundance (FRP doubling), productivity, and life-history diversity 

metrics for the Stanislaus River and the Central Valley. It also directly addresses the OCAP RPA 

III.2.1 and RPA III.2.2, and NMFS CV Salmonid Recovery Plan (2.10: 8.2, 48.1, 48.2, 52.3, 59.3). 

The project addresses the most limiting factor for the watershed: availability of juvenile rearing 

habitat and added gravel will provide long-term benefit by creating additional spawning and rearing 

habitat as it mobilizes downstream.

We will develop a monitoring plan in collaboration with the SIT and will inform the DSM by 

providing data to refine model parameters (gravel mobilization, fish utilization, thermal effects), and 

will inform management through assessing project costs.
182

We anticipate this project to be very cost effective as this is the only viable methodology to restore 

habitat in the inaccessible areas of Goodwin Canyon. The proposed costs are based on recently 

completed gravel augmentation projects. The project leverages clean spawning gravel from DFW 

reducing costs.

Most funding will go toward on the ground restoration (and permitting). USBR is in the process of 

improving the bridge over OID’s south-side canal to accommodate gravel trucks (complete ~March 

2020).

Failure to implement results in reduced habitat and declining salmonid populations. It is likely 

impossible to recover spring-run in the watershed without a large-scale effort to restore alluvial 

habitat within the canyon. USBR will continue to fail to meet 2009 NMFS BO RPA III.2, violating 

the Endangered Species Act.

There are no known stakeholder objections. OID is supportive.

Data Management

The PMT Data Steward will coordinate with external partners and biannually with the CVPIA Data 

Manager on the transmission of long-term monitoring and other pertinent data defined by the SIT 

and the PMT per the 2020 Data Guidance.

Field data will be recorded on data sheets or directly into a recording device/computer and 

transferred into a computer spreadsheet or database. The PMT Data Steward will coordinate with 

the CVPIA Data Manager on the transmission of relevant and pertinent data defined by the SIT and 

the PMT per the 2020 Data Guidance. Field data, analyses, and reports will be stored and backed up 

on a PMT computer/server.

Short term monitoring will focus on sediment transport relative to flow. Additional monitoring will 

attempt to assess benefits to local temperature (Ock and Kondolf 2012) using temperature loggers. 

Ongoing DFW surveys would document utilization of gravel by spring-running Chinook Salmon, 

and Rotary Screw Trapping at Caswell will provide evidence of juvenile spring-run production. 

Long term-monitoring could entail assessing the budget for future annual gravel additions and will 

assist with acquiring information to obtain necessary permits for future projects. This would be 

developed in collaboration with the SIT after successful evaluation of the sediment budget.

Data would be collected using standardized methods and follow CVPIA protocols where 

appropriate.

Metrics were calculated using parameters from the DSM.

Contact J.D. Wikert for data.
183

Risks

Risk Likelihood Impact

Loss of access to priority gravel placement sites. This risk is mitigated by 

collaborating with OID to design and build a new bridge to accommodate 

dual trailer gravel haulers.

1 1

Cost Estimate

Year Fund Total BOR FWS

2020 CVPRF $265,000 $0 $265,000

2021 CVPRF

2022 CVPRF $2,226,000 $0 $2,226,000

Total Cost: $2,491,000
184

Internal Agency Resources Table

Type Name Rate Frac. MU Total Agency Fund Description

2020

Environmental 

Compliance 

and 

Permitting

Agreement Agreement -

Permitting 

$150,000 1.00 0.06 $159,000 FWS CVPRF

Research

Agreement Grant or Agreement $100,000 1.00 0.06 $106,000 FWS CVPRF Funding for sediment budget analysis.

2022

Construction

Agreement Agreement or Contract $2,000,000 1.00 0.06 $2,120,000 FWS CVPRF

Reporting

Agreement Grant or Agreement $50,000 1.00 0.06 $53,000 FWS CVPRF Report summarizing gravel 

distribution and mobility and 

providing a sediment budget for the 

canyon.

Research

Agreement Grant or Agreement $50,000 1.00 0.06 $53,000 FWS CVPRF Funding for post-project assessment 

of gravel distribution in the canyon.
185

Monitoring Chinook salmon smolt out-migration in the 

Sacramento River in April and May Using Acoustic Telemetry

Multi-year study of Chinook salmon smolt out-migration survival in the Sacramento River using 

acoustic telemetry. The out-migration of hatchery and natural-origin Chinook salmon smolts tagged 

and released in April and May in the Upper Sacramento River will be monitored using an acoustic 

receiver array to identify high-mortality zones and to relate smolt survival to a suite of covariates, 

including flow, temperature, route selection, and water year type. 

Classification: Research, Reconnaissance

Location: Sacramento River: Redding to Colusa, Sacramento Lower Mainstem

Funding Years: 2020 - 2029

Benefits Start Year: 2020

Priority: 1 - The FY20 SIT Memo identifies that improving out-migration survival for 

all four runs of juvenile Chinook in the upper Sacramento River is a priority. 

The FY20 SIT Memo also recommends identify high mortality zones, 

including predator contact points, for all four races of juvenile Chinook 

salmon on the upper Sacramento River. Pulse flows, Upper Sacramento 

River Oct-Dec (until May in dry- below normal years)

Partners: CDFW, NMFS, USBR, USFWS

Related Programs: CVPIA b1, NMFS-RP

Authority

Provision Percentage

(b)(15) CAMP 100.0%

Metrics

Name Value Units Comment

Improve Survival 1 number 

of fish

This evaluation will be used to determine where high 

losses of Chinook salmon smolt out-migrating in 

April and May are occurring and to better understand 

relationships between environmental conditions and 

out-migration survival in the Sacramento River

Deliverables

Date Title

Dec. 2021 Bi-Annual Report

Dec. 2023 Bi-Annual Report

Dec. 2025 Bi-Annual Report

Dec. 2027 Bi-Annual Report

Dec. 2029 Bi-Annual Report
186

Narrative

Recent acoustic tagging studies using hatchery and natural-origin Chinook salmon smolts have 

shown high mortality occurring in the main-stem Sacramento River between river miles 206 and 144 

(roughly Hamilton City to Colusa). However, specific information describing proximate sources and 

mechanisms of mortality is lacking. Based on rotary screw trap monitoring conducted 1996 through 

2010, peak out-migration of spring-run Chinook salmon smolts from Deer and Mill Creek’s occurs 

mid-April through mid-May. These populations represent two of the three remaining viable, 

independent populations of Central Valley spring-run Chinook salmon. In addition, Coleman 

National Fish Hatchery (CNFH) releases most of their annual production (approx.13 million fish) of 

fall-run Chinook salmon smolts in the month of April. CNFH fall-run Chinook mitigate for salmon 

habitat lost to Shasta dam, and contribute significantly to sport and commercial salmon industries. 

Obtaining sufficient data on smolt survival in the Sacramento River is needed inform water 

operations decisions and to provide the AFRP with guidance to design and fund successful 

restoration projects. Key areas of interest for investigators include identification of high-mortality 

zones and causation (predation, water quality, etc.), and environmental conditions that result in high 

or low survival, including flow, temperature, and turbidity. 

We propose to implement an acoustic tagging study designed to evaluate spring (April and May) 

smolt out-migration survival over a multi-year period. A governing Science Technical Team will 

identify targeted study objectives based on annual conditions, including water year type and Shasta 

Reservoir storage. Study objectives include evaluating flow management actions such as pulse flows, 

focused telemetry monitoring at suspected predator contact points (bridge pilings, diversion 

structures, etc.) and identification of high-mortality zones within upper, middle, and lower 

Sacramento River regions. 

An extensive array of acoustic receivers will be deployed in the main-stem Sacramento River during 

the study period. Additional receivers will be placed in focused areas of interest (ex. upstream and 

downstream of diversion structures). When available, natural-origin smolts will be tagged and 

released. However, we anticipate primarily using CNFH smolts as surrogates due to currently 

depressed populations of natural-origin spring and fall-run Chinook stocks. Up to 600 smolts will be 

tagged and released annually. Release group size, timing, and location(s) will be determined annually 

by the Science Technical Team and based on annual study objectives.

The FY20 SIT Memo identifies that improving out-migration survival for all four runs of juvenile 

Chinook in the upper Sacramento River is a priority. The FY20 SIT Memo also recommends 

identify high mortality zones, including predator contact points, for all four races of juvenile 

Chinook salmon on the upper Sacramento River. 

Data Management

We expect that the data gathered during this multi-year period will provide managers with guidance 

needed to prescribe appropriate flow actions and habitat remedies based on sound science. 

www.fws.gov/redbluff/afrp.html
187

Risks

Risk Likelihood Impact

Tagging of CNFH Chinook salmon smolts 1 1

Tagging of natural-origin Chinook salmon smolts 1 1

Cost Estimate

Year Fund Total BOR FWS

2020 CVPRF $232,320 $0 $232,320

2021 CVPRF $200,520 $0 $200,520

2022 CVPRF $200,520 $0 $200,520

Total Cost: $633,360
188

Internal Agency Resources Table

Type Name Rate Frac. MU Total Agency Fund Description

2020

Management

Labor Labor $50,000 1.00 0.00 $50,000 FWS CVPRF Financial assistance to Southwest Science Center for 

acoustic tagging, and data analysis

Research

Equipment or 

Materials

JSAT 

Receivers

$31,800 1.00 0.00 $31,800 FWS CVPRF 6 JSATS Receivers @ $5000.00 each

Equipment or 

Materials

Surgical 

Supplies

$1,060 1.00 0.00 $1,060 FWS CVPRF Misc. surgical supplies including sutures, scalpels, 

and forceps.

Equipment or 

Materials

JSATS 

Tags

$149,460 1.00 0.00 $149,460 FWS CVPRF Acoustic tagging and monitoring and maintenance 

of equipment 600 tags per season @ $235 per tag.

2021

Management

Labor Labor $50,000 1.00 0.00 $50,000 FWS CVPRF Financial assistance to Southwest Science Center for 

acoustic tagging, and data analysis

Research

Equipment or 

Materials

JSATS 

Tags

$149,460 1.00 0.00 $149,460 FWS CVPRF Acoustic tagging and monitoring and maintenance 

of equipment 600 tags per season @ $235 per tag.

Equipment or 

Materials

Surgical 

Supplies

$1,060 1.00 0.00 $1,060 FWS CVPRF Misc. surgical supplies including sutures, scalpels, 

and forceps.

2022

Management

Labor Labor $50,000 1.00 0.00 $50,000 FWS CVPRF Financial assistance to Southwest Science Center for 

acoustic tagging, and data analysis

Research

Equipment or 

Materials

JSATS 

Tags

$149,460 1.00 0.00 $149,460 FWS CVPRF Acoustic tagging and monitoring and maintenance 

of equipment 600 tags per season @ $235 per tag.

Equipment or 

Materials

Surgical 

Supplies

$1,060 1.00 0.00 $1,060 FWS CVPRF Misc. surgical supplies including sutures, scalpels, 

and forceps.
189

Dye Creek/Shasta Boulevard Bridge Crossing Project

The Dye Creek/Shasta Boulevard Bridge Crossing Project entails the design,

permitting, environmental impact analysis and construction of an improved crossing of Shasta

Boulevard over Dye Creek.

Classification: Improvement, Fish Passage

Location: Dye Creek Shasta Boulevard, Miscellaneous Sacramento Tributaries

Funding Years: 2019 - 2022

Benefits Start Year: 2020

Priority: 1 - This proposal aligns with the following SIT FY20 priority for Winter-run 

Chinook Salmon: Increase access to non-natal tributaries to open up habitat 

in Upper and Upper Mid Sacramento Aug-March

Partners: USFWS, CDFW, Tehama County RCD

Related Programs: CVPIA b1, NMFS-RP

Authority

Provision Percentage

(b)(1) AFRP 50.0%

Metrics

Name Value Units Comment

Low water crossing 1 number of 

improvements

Project would eliminate low water fish passage 

impediment and undersized culverts to benefit 

CV Steelhead and Non-natal rearing Winter 

Chinook Salmon

Deliverables

Date Title

Oct. 2020 Semi Annual Progress Report

Apr. 2021 Semi Annual Progress Report

Oct. 2021 Semi Annual Progress Report

Apr. 2022 Semi Annual Progress Report

Oct. 2022 Final Project Report

Project Management Team

Jon Barrett, Project Manager

Phone: 530-727-1280 x 102

email: jon@tehamacountyrcd.org

Patricia Bratcher, Fish Biologist

Phone: 530-945-4261

email: patricia.bratcher@wildlife.ca.gov
190

James Earley, Fish Biologist

Phone: 530-527-3043 x 261

email: james_earley@fws.gov

Barry O’ Regan, P.E.

Discipline: Principle Engineering

Phone: 916-403-5900

email: boregan@ksninc.com

Role: Civil Engineer KSN, Inc

Narrative

The Dye Creek/Shasta Boulevard Bridge Crossing Project will implement an improved fish passage 

under Shasta boulevard road crossing of Shasta Boulevard over Dye Creek. The California Wildlife 

Conservation Board (WCB) is funding $375,000.00 to complete 100% engineering designs, 

CEQA/NEPA environmental analysis and all permits required to implement construction of a 

raised road crossing over Dye Creek along Shasta Boulevard.

The current crossing structure has been identified as a passage barrier to Federally listed Steelhead 

(Oncorhynchus mykiss), and potentially Juvenile Spring, Fall and Winter run Chinook Salmon 

(Oncorhynchus tshawytscha) Chinook Salmon from intermittent non-natal rearing habitat between the 

stream’s lower reach and mouth along the Sacramento River to its upper watershed located within 

The Nature Conservancy’s Dye Creek Preserve.

This proposal to implement this project is in line with the 2020 SIT Technical Memo. The SIT tech 

memo identified using BACI design methodologies for restoration effectiveness monitoring, 

increasing access to non-natal tributaries in the upper and upper mid Sacramento River which have 

been shown to be beneficial for multiple runs of juvenile salmonids, identify survival and eliminate 

the likelihood of juvenile stranding in intermittent streams. This project seeks to address all of these 

elements.

This proposal will serve as a pilot project to refine methodologies for the larger Central valley wide 

Non-natal rearing study proposed for 2020.

The project will implement a monitoring design that will clearly demonstrate the effect of the 

management actions on wild juvenile Chinook Salmon survival through:

A BACI (Before After Control Impact Study) design to identify changes from pre-project conditions 

to post project restoration.

Measure how many fish of which runs (through genetics) are present before and after.

Identify survival characteristics (i.e. PIT tags, arrays, etc) to determine movement and access or 

standing levels.

Funding is requested for Pre/Post Monitoring for 2020 and Implementation for 2021.
191

AFRP working Paper Volume 3:

Miscellaneous Sacramento River Tributaries

Action 5: Replace bridge/ford combinations with bridges or larger culverts.

Objective: Expand the usable habitat in some tributaries.

Location: Central Valley reaches of rearing tributaries that have bridge/ford crossings.

Some rearing tributaries have low road crossings, usually constructed of concrete with small culverts 

so that low flows pass through the culverts at high velocity and higher flows spill over the road bed 

(e.g., Elder Creek by TCC, Dye Creek at Shasta Boulevard.) The high velocity and turbulence of 

water passing through these culverts prevent juvenile Chinook salmon from migrating further 

upstream, sometimes blocking access to miles of channel suitable for rearing.

This proposal would implement the project designed under the WCB grant.

Deliverables in all years of this project will be coordinated with the CVPIA Data Manager, CVPIA 

Science Coordinator, and CVPIA Fish Resource Area Coordinator.

Data Management

Data will be maintained and reports submitted to USFWS at

https://www.fws.gov/redbluff/afrp.html. The PMT Data Steward will coordinate with external 

partners and biannually with the CVPIA Data Manager on the transmission of long-term monitoring 

and other pertinent data defined by the SIT and the PMT per the 2020 Data Guidance.

Field data will be recorded on data sheets or directly into a recording device/computer and 

transferred into a computer spreadsheet or database. The PMT Data Steward will coordinate with 

the CVPIA Data Manager on the transmission of relevant and pertinent data defined by the SIT and 

the PMT per the 2020 Data Guidance. Field data, analyses, and reports will be stored and backed up 

on a PMT computer/server.

This project will support efforts of improving access for non-natal rearing juvenile Chinook salmon 

as identified in the SIT FY20 Call for Project Proposals. Recent studies by Phillis C.C., Anna M. 

Sturrock, Rachel C. Johnson and Peter K. Weber 2018 Endangered winter-run Chinook salmon rely 

on diverse rearing habitats in a highly altered landscape; has highlighted the importance of 

Sacramento River Tributaries for non-natal rearing of Winter Chinook. Additionally, studies 

conducted from 1996-2000 by Maslin et al. CSU Chico on Intermittent Streams as Rearing Habitat 

for Sacramento River Chinook Salmon identified Dye Creek as an important stream for non-natal 

rearing of all runs of Chinook.

Data produced by this project will be used in the development of a sub-module of the Science 

Integration Team’s Salmon Decision Support Model(s). The Project Management Team Leader will 

coordinate with the CVPIA Science Coordinator on the development and submission of a SIT DSM 

Modification Proposal (Using the standard proposal template), as well as ensure progress on 

completing the sub-module in cooperation with the Science Integration Team.

Risks

Risk Likelihood Impact

Cost Share not approved 1 1
192

Cost Estimate

Year Fund Total BOR FWS DFW

2020 Other $401,000 $0 $0 $401,00

2020 CVPRF $30,000 $30,000

2021 CVPRF $373,000 $0 $373,000 $0

Total Cost: $804,000
193

Internal Agency Resources Table

Type Name Rate Frac. MU Total Agency Fund Description

2020

Administration

Agreement Ca Wildlife 

Conservation Board

$44,415 1.00 0.00 $44,415 DFW Other WCB Grant for Wildlife Corridor and Fish 

Passage Program

Environmental 

Compliance and 

Permitting

Agreement Ca Wildlife 

Conservation Board

$330,585 1.00 0.00 $330,585 DFW Other WCB Grant for Wildlife Corridor and Fish 

Passage Program

Monitoring

Project Pre/Post 

Monitoring

$30,000 1.0 0.00 $30,000 FWS CVPRF Pre/Post Monitoring

Management

Agreement Ca Wildlife 

Conservation Board

$26,000 1.00 0.00 $26,000 DFW Other WCB Grant for Wildlife Corridor and Fish 

Passage Program

2021

Implementation

Agreement Implementation 

and Construction

$373,000 1.00 0.00 $373,000 FWS CVPRF Project implementation of as built 100% 

design
194

Battle Creek Stream Surveys and Temperature Monitoring

Monitor the distribution of adult spring and winter Chinook spawning, along with water 

temperatures, streamflow, and egg-to-fry survival.

Classification: Performance Monitoring, Habitat Restoration

Location: 40.356282, -121.175144, Battle Creek

Funding Years: 2019 - 2023

Benefits Start Year: 2019

Priority: 1 - FY20 monitoring priorities: Water temperature statistics; egg to fry 

survival; adult population estimates; juvenile tributary survival; and, hatchery 

origin adult returning. Evaluate FY20 science-based priorities including: 

Improve adult and juvenile passage on Battle Creek.

Partners: PG&E, USBR, Battle Creek Working Group, CDFW, NMFS

Related Programs: AFRP

Authority

Provision Percentage

(b)(1) AFRP 100.0%

Metrics

Name Value Units Comment

Egg to fry survival 100 percentage 

of fish

Identify redds to determine the percentage of fish 

that successful spawned and survived to 

emergence

Water quality 46 miles Water temperatures within the Battle Creek 

Watershed

Spawning habitat 46 miles Suitable habitat for spring and winter-run Chinook 

Salmon within the Battle Creek Restoration Project 

area

Juvenile and adult 

survival 

100 percentage 

of fish

Survival rates of diverse juvenile and adult lifehistory strategies

Hatchery Influence 1500 number of 

fish

Genetically analyze tissue samples to determine 

hatchery influence on the Battle Creek spring-run 

populations, and identify the run of chinook 

necessary for population abundance estimates

Deliverables

Date Title

Sep. 2021 2020 Battle Creek Adult Report

Sep. 2022 Final Report - Otolith Microchemistry and Life-history analysis

Sep. 2022 Final Report - Genetic Analysis

Sep. 2022 2021 Battle Creek Adult Report
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Date Title

Sep. 2023 2022 Battle Creek Adult Report

Narrative

This program monitors the spatial and temporal distribution of adult spring (and potential winterrun) Chinook Salmon spawning within the Battle Creek Restoration Project area. Environmental 

factors that affect the survival of adult and juvenile spring Chinook are also monitored. Bio-samples 

(tissue and ololith samples) are collected from adult carcasses that are encountered. This monitoring 

is not funded through RPA monitoring, but is essential for adaptive management of the Battle Creek 

watershed and population estimates used by the SIT SDM. This project has been previously funded 

by Iron Mountain Mine Trustee council, which no longer has funding and we seek funds for FY20-

23.

Adult escapement and juvenile production monitoring, funded by the BOR evaluates overall 

performance of the Restoration Project but does not provide important information needed to 

adaptively manage the Restoration Project to maximize the recovery of listed salmonids. The 

Adaptive Management Plan for the Battle Creek Salmon and Steelhead Restoration Project requires 

that we understand the distribution of salmonids within the Project’s boundaries and collect 

environmental data at those locations. The redd distribution survey will provide this information for 

spring and winter-run Chinook salmon and contribute greatly to the long-term success of the 

project. Environmental data collected through this project informs management decisions and is 

used to evaluate the success of restoration actions. 

Results from the redd distribution snorkel surveys will be analyzed and presented in an annual 

reports. Results will also be presented at regular meetings of the Adaptive Management Technical 

Team and be a significant part of the annual Adaptive Management Report as required under the 

Battle Creek Memorandum of Understanding. Staff with expertise in GIS will analyze and present 

data in a geographic spatial format. Water temperatures will be modeled for each individual redd to 

estimate temperature effects on egg incubation. Redd count data will be combined with adult 

escapement and juvenile production estimates to produce survival metrics such as “number of redds 

created per adult female” and “number of juveniles produced per redd.” Environmental data (e.g., 

flow, water temperatures, snow pack, climate, etc.) will be analyzed for correlation with survival 

metrics to inform the adaptive management process.

Genetic and otolith analyses will provide information on the life history of the fish that return to 

Battle Creek and provide information on whether the Wildcat Dam removal and instream flow 

alterations increased the returns. Genetic, otolith, and scale samples have been collected from 

carcasses found during our snorkel surveys. A contract would be executed between RBFWO and 

the National Marine Fisheries Service for otolith analysis. The otoliths could be used to determine 

the stream of origin and the juvenile residency at the various locations along their emigration to the 

ocean. The genetic samples would be analyzed for Genetic Stock Identification by the FWS 

Abernathy Fish Technology Center. These biological samples (genetics and otoliths) have been 

collected on stream surveys funded by IMM and CDFW. While some of our previously collected 

genetic samples have been analyzed (2001-2014), otoliths have not.
196

Data Management

This project follows the monitoring protocol outlined in the Battle Creek Adaptive Management 

Plan, which includes population, habitat, and passage objectives. This monitoring meets the 

following priorities listed in FY20 call for charters: egg to fry survival and adult population estimates. 

In addition, this project includes a otolith microchemistry and genetics component, which will help 

to inform questions regarding the following monitoring priorities: juvenile tributary survival; 

hatchery origin adult returning; and, hatchery origin influence reproduction. 

All Battle Creek data are stored in a database maintained by USFWS staff at the Red Bluff Fish and 

Wildlife Office. Annual reports are available on the RBFWO website. Additionally, all data and 

associated project documents (permits and reports) will be stored on a computer hard drive and 

backed up on an agency server. Final reports completed by other entities will also be posted on the 

RBFWO website and data stored on the agency server.

Risks

Risk Likelihood Impact

Work is not completed because of lack of funding 2 2

Cost Estimate

Year Fund Total BOR FWS

2020 CVPRF $509,284 $0 $509,284

2021 CVPRF $250,837 $0 $250,837

2022 CVPRF $253,423 $0 $253,423

Total Cost: $1,013,543
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Internal Agency Resources Table

Type Name Rate Frac. MU Total Agency Fund Description

2020

Monitoring

Labor Fish Biologist $243,957 0.96 0.06 $248,251 FWS CVPRF Estimate reproductive success of adult spring and 

winter-run Chinook that have immigrated into the 

Battle Creek Restoration Project area, recover 

biological information from carcasses encountered 

during surveys, and collect environmental data.

Research

Agreement Otolith and 

Water 

Microchemistry

$107,341 1.00 0.00 $107,341 FWS CVPRF Contract with NMFS and UC Davis to complete 

otolith microchemistry analyses on otoliths collected 

from adults that returned and successfully spawned 

in Battle Creek

Agreement Genetic 

Analysis

$153,692 1.00 0.00 $153,692 FWS CVPRF Contract with FWS Abernathy Fish Technology Center 

to analyze tissue samples and continue with previous 

efforts to develop baseline information for returning 

adults to Battle Creek.

2021

Monitoring

Labor Fish Biologist $243,957 0.97 0.06 $250,837 FWS CVPRF Estimate reproductive success of adult spring and 

winter-run Chinook that have immigrated into the 

Battle Creek Restoration Project area, recover 

biological information from carcasses encountered 

during surveys, and collect environmental data.

2022

Monitoring

Labor Fish Biologist $243,957 0.98 0.06 $253,423 FWS CVPRF Estimate reproductive success of adult spring and 

winter-run Chinook that have immigrated into the 

Battle Creek Restoration Project area, recover 

biological information from carcasses encountered 

during surveys, and collect environmental data.
198

Supplementation of marine derived nutrients in High Elevation 

Central Valley Spring Run Streams

Increase the physical condition and survival of wild Central Valley Spring run juveniles by 

supplementation of marine-derived nutrients into their natal streams. 

Classification: Improvement, Other Habitat Restoration

Location: High elevation Deer Creek sites with truck access, Deer Creek

Funding Years: 2019 - 2022

Benefits Start Year: 2020

Priority: 2 - SIT Priority for improving habitat for juvenile Spring-run Chinook in 

Deer Creek.

Tier 1 Monitoring Priority (Juvenile tributary survival)

Partners: CDFW, Pacific States Marine Fisheries Commission

Related Programs: AFRP

Authority

Provision Percentage

(b)(1) AFRP 100.0%

Metrics

Name Value Units Comment

Stream miles monitored 32 miles This project will improve the productivity and 

carrying capacity of perennially inundated Spring 

run rearing habitat in Deer Creek. The results can 

be applied to other Spring run tributaries with 

depressed populations, such as Mill, Battle, and 

Clear Creeks.

Juvenile condition 

increased

1 condition This project will increase the condition and 

robustness of Spring run juveniles in a beforeafter-control-impact study design

Juvenile population 

increased

300000 number of 

fish

This project will increase rearing habitat capacity 

and the number of fish surviving to outmigration. 

Deliverables

Date Title

Sep. 2022 Annual report

Sep. 2023 Annual report

Sep. 2021 Annual report
199

Narrative

This project intends to increase the productivity of rearing habitat for juvenile Spring run Chinook 

salmon in the upper Deer Creek watershed by supplementation of marine-derived nutrients (MDN) 

near that of historic population levels.

There is a strong positive correlation observed in freshwater survival and condition factor of 

migrating juvenile Chinook. It is possible that Spring run juveniles rearing in high elevation streams 

such as Mill and Deer Creeks can benefit from supplementation of marine-derived nutrients in an 

effort to compensate for the loss of food abundance as a result of sustained low numbers of 

spawning adult salmon. This deficit of marine-derived nutrition can negatively influence the overall 

productivity of the rearing habitat of their natal stream, and in turn reduce the carrying capacity of 

these watersheds.

Restoration of Chinook salmon populations to historic levels are capped by the carrying capacity of 

the ecosystems upon which they depend. Supplementation of marine-derived nutrients may help 

increase the productivity of natal spring run tributaries to allow for an increased carrying capacity of 

juvenile fish, closer to that of historic levels.

This project plans to supplement Deer Creek with 2,000 – 3,000 Chinook salmon carcasses obtained 

from Coleman National Fish Hatchery, at six locations within the current spawning range of wild 

Spring run Chinook for three consecutive years. Condition factor will be measured from juvenile 

Spring run salmon collected at rotary screw traps in lower Deer Creek. This data will be compared to 

historic condition factors collected in Deer Creek from 2002-2018. Deer Creek data will also be 

compared to condition factors collected from Spring run juveniles collected in rotary screw traps on 

Mill Creek, which will serve as a control for this study. Before-After-Control-Impact (BACI) test 

will be used to compare data collect from each group. 

The work for this project will be conducted through a cooperative agreement with USFWS and 

PSMFC with assistance from CDFW.

SIT Tech memo priorities: 

1. Spring run - Increase perennially inundated juvenile habitat, Deer Creek – study and food 

supplementation enhances the benefits created by additional habitat and increased stream flows.

2. All runs - Adaptively manage juvenile habitat restoration to allow the evaluation of the effect 

of habitat restoration on wild juvenile Chinook salmon survival in the Sacramento River. Deer 

Creek is a key spring-run stream, as well as a key tributary/watershed for steelhead and fall-run 

Chinook.

This project meets NMFS CV Spring run Recovery plan objective for Deer Creek DEC-2.12 and 

DEC-2.8 (Action Priority 2).
200

Data Management

Project addresses the SIT Priority of Juvenile Tributary Survival. The project has both short- and 

long-term monitoring elements. STOS monitoring will include fish response to food augmentation. 

Condition factor will be measured from juvenile Spring run salmon collected at rotary screw traps in 

lower Deer Creek. This data will be compared to historic condition factors collected in Deer Creek 

from 2002-2018. Deer Creek data will also be compared to condition factors collected from Spring 

run juveniles collected in rotary screw traps on Mill Creek (the CONTROL). Before-After-ControlImpact (BACI) test will be used to compare data collect from each group. 

Performance metrics associated with juvenile survival and instream habitat quality are related to 

DSM and Peterson (2014) elements and are integrated into the monitoring plan.

The final reports for this project will be available at:

http://www.calfish.org/Programs/ProgramIndex/CDFGUpperSacRiverBasinSalmonidMonitoring

/tabid/222/Default.aspx

Risks

Risk Likelihood Impact

Annual snowpack and rainfall will determine river stage and 

annual opportunity for data collection.

2 1

Cost Estimate

Year Fund Total BOR FWS

2020 CVPRF $75,000 $0 $75,000

Total Cost: $75,000

Internal Agency Resources Table

Type Name Rate Frac. MU Total Agency Fund Description

2020

Implementation

Agreement Agreement 

with PSFMC

$75,00

0

1.00 0.00 $75,000 FWS CVPRF Three-year 

agreement 

with SFMC
201

Effect of Dam Operations on Upper Sacramento River Winter 

Chinook Habitat 

Evaluate and quantify the effect that managed flow regimes have on Juvenile Winter run Chinook 

salmon habitat in the Upper Sacramento River. 

Classification: Research, Instream Flows

Location: Upper Sacramento River, Sacramento Upper Mainstem

Funding Years: 2020 - 2024

Benefits Start Year: 2020

Priority: 2 - SIT Priority for 1) All runs - Increase perennially inundated juvenile 

habitat, Sacramento River above the American River confluence;

2) All runs - Adaptively manage juvenile habitat restoration to allow the 

evaluation of the effect of habitat restoration on wild juvenile Chinook 

salmon survival in the Sacramento River, by determining optimal channel 

elevation for restoration projects.

Monitoring Priority: juvenile in-channel rearing habitat. This project also meets 2014 NMFS CV 

Salmon and Steelhead Recovery Plan objective for Sacramento River 

mainstem, SAR-1.4 (Action Priority 1): Develop and implement a river flow 

management plan for the Sacramento River downstream of Shasta and 

Keswick dams that considers the effects of climate change and balances 

beneficial uses with the flow and water temperature needs of winter-run 

Chinook salmon, spring-run Chinook salmon, and steelhead. The flow 

management plan should consider the importance of instream flows as well 

as the need for floodplain inundation.

Partners: CDFW, Pacific States Marine Fisheries Commission

Related Programs: No Data.

Authority

Provision Percentage

(b)(1) AFRP 75.0%

(b)(2) Dedicated Yield 25.0%

Metrics

Name Value Units Comment

Amount of juvenile 

rearing habitat 

500000 square 

feet

Evaluation will establish current habitat availability 

and changes resulting from flow management.
202

Deliverables

Date Title

Sep. 2021 Annual Report

Sep. 2022 Final Report

Narrative

The purpose of this study is to examine the effect that Central Valley Project operations have on 

designated critical habitat of winter-run Chinook salmon (Oncorhynchus tshawytscha) (winter-run) in the 

upper Sacramento River. Specifically, this study intends to evaluate and quantify reductions in the 

amount of suitable habitat available to the egg to fry life-stage of juvenile winter-run following flow 

reductions in the fall and early winter months that are related to operational changes of Shasta 

Reservoir. 

Typical operation of Shasta Reservoir and the flow of the Sacramento River from Keswick Dam 

includes a reduction (ramping down) of high summer flows at the end of irrigation season. 

Beginning in the early fall, flows are decreased following a ramping rate based on end of September 

Shasta Reservoir storage levels, the protection of shallow-water winter-run redds, salinity in the 

Delta, and fall agricultural demands (NMFS, 2011). Flow reductions continue until a current 

minimum base flow of 3,250 cfs is reached (typically between December and March), and this base 

flow is typically maintained through the winter unless flows are increased for Shasta Reservoir flood 

control. 

This study will investigate any impacts to fry-stage and fry-stage juvenile winter-run habitat due to 

flow reductions that occur from August to February by mapping areas lost to juvenile rearing during 

drops in river flows. This time period reflects both critical operational changes in Shasta Reservoir 

portion of Central Valley Project operations, as well as critical life stage for winter-run in the 

Sacramento River. There will also be (co)incidental information on impacts to fry-stage juvenile fallrun Chinook habitat as the study period overlaps the timing of fall-run emergence/fry stage and the 

typical maintenance of a minimum base flow of 3,250 cfs into March in dry to normal years. 

The work for this project will be conducted through a cooperative agreement with USFWS and 

PSMFC with assistance from CDFW.

Data Management

The final reports for this project will be available at:

http://www.calfish.org/Programs/ProgramIndex/CDFGUpperSacRiverBasinSalmonidMonitoring

/tabid/222/Default.aspx and at the Red Bluff FWO office.

A study plan is one of the deliverables. Performance metrics are derived from SIT priorities (e.g. 

juvenile rearing habitat), as well as the data needed for and/or associated with the Decision Support 

Model effort.

The project will contribute to information needed on juvenile biomass (SIT FY20 memo) as it 

relates to habitat quantities—previous work on Clear Creek has quantified the effect of certain 
203

(instream) habitat improvement changes...creating additional habitat for juvenile fish can pull upon 

that experience to assess level of benefit.

The project has both short-term objective-specific monitoring elements by providing real time input 

on habitat condition, as well as long-term trend monitoring elements. The project can be used to 

assess trends if/when habitat expansion occurs via a change in operations, restoration, etc. and level 

of fish response. Restored areas can also be assessed in the future as it relates to overall fish 

production, potentially via methods such as snorkeling of JSAT technology. 

Contact information: Ryan Revnak and Doug Killam, Region 1 CDFW Jim Earley USFWS.

Risks

Risk Likelihood Impact

Lack of range of flows to analyze 1 2

Funding reductions 1 2

Cost Estimate

Year Fund Total BOR FWS

2020 CVPRF $95,400 $0 $95,400

Total Cost: $95,400
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Internal Agency Resources Table

Type Name Rate Frac. MU Total Agency Fund Description

2020

Research

Agreement Agreement $15,900 1.00 0.00 $15,900 FWS CVPRF Analyze spatial data and quantify the amount of habitat at 

each flow.

Agreement Agreement $79,500 1.00 0.00 $79,500 FWS CVPRF Collect GIS and spatial habitat data throughout the year, 

during four different flow regimes and at multiple sites
205

Develop a Methodology for Rockwad Habitat Design

Establishes a simplified design procedure for rockwad habitat through hydrodynamic modeling, 

physical experiments, and fish behavior algorithms. Full installation of rockwad habitat design 

planned in future charter.

Classification: Improvement, Refugia

Location: Sacramento-San Joaquin basin, Delta (throughout), Sacramento Upper 

Mainstem

Funding Years: 2019 - 2021

Benefits Start Year: 2019

Priority: 1 - Increase perennially inundated juvenile habitat, Sacramento River above 

the American River confluence; increase seasonally inundated habitat at 2-yr. 

frequency, Sacramento River above American River confluence; increase 

rearing habitat in Central Delta, Delta; increase perennially inundated juvenile 

habitat, Lower San Joaquin River

Partners: TSC, USACE, USFWS

Related Programs: Reclamation S&T

Authority

Provision Percentage

3406 (g) 60%

Science & Technology (USBR-Denver) 40%

Metrics

Name Value Units Comment

Rockwad Design Guidelines 0 N/A To be established with hydrodynamic modeling 

and fish behavior algorithms

Juvenile Rearing Habitat 0 acres To be determined with hydrodynamic modeling 

and fish behavior algorithms

Deliverables

Date Title

Sep. 2022 Technical Memorandum of Design Procedures

Mar. 2020 Hydrodynamic Modeling Plan

Sep. 2021 Progress Report

Deliverables in all years of this project will be coordinated with the CVPIA Data Manager, CVPIA 

Science Coordinator, and CVPIA Fish Resource Area Coordinator.
206

Project Management Team

Jenna Paul (USBR)

(916) 978-5185

jpaul@usbr.gov

Dave Smith (USACE)

(601) 634-4267

David.L.Smith@erdc.dren.mil

Mark Gard (USFWS)

(209) 334-2968

mark_gard@fws.gov

Yong Lai (USBR, TSC)

(303) 445-6351

ylai@usbr.gov

Dave Vogel (Natural Resource Scientists, Inc.), Fisheries Scientist

(530) 604-3843

dvogel@resourcescientists.com

Narrative

1. This project develops a design method for creating juvenile habitat using rockwads. A 

rockwad is a tree trunk (with root cluster) anchored to a large boulder. The boulder and 

root mass provide velocity and predator refugia, allowing juveniles to safely rest and eat 

during their emigration. Key elements in the design process include hydrodynamic 

simulations, physical models, and fish behavior algorithms. Full implementation of a 

rockwad design planned in a future charter.

2. Increase perennially inundated juvenile habitat, Sacramento River above the American River 

confluence. The proposed design method is also applicable on other rivers.

3. A prototype rockwad will be graphically rendered in AutoCAD using structure from motion 

(SfM) and terrestrial LiDAR scanning techniques. Then it will be placed into a large flume, 

where the velocity field can be evaluated. The physical modeling in the flume will provide 

the calibration and validation data for 2D and 3D numerical models. These models include 

Sedimentation and River Hydraulics—Two-Dimensional (SRH-2D) and Unsteady and 

Unstructured Reynolds Averaged Navier-Stokes (U2RANS), respectively. Both SRH-2D 

and U2RANS will be used to simulate the hydraulic conditions around the rockwad within 

the geometry of the flume. The hydrodynamic model results will be imported into the 

Eulerian- Lagrangian Agent Method (ELAM) tool to evaluate fish behavior around the 

rockwad. As 3D modeling is impractical on the reach scale, a simplifying relationship will be 

developed between SRH-2D and U2RANS models. Following these physical and numerical 

results of a single rockwad, SRH-2D models will be developed along a study reach with 

several alternative rockwad placement patterns. These models will be evaluated with ELAM 

to identify the most successful rockwad quantity, sizes, and arrangements as indicated by the 

fish behavior algorithm. 
207

4. Increases juvenile habitat in the Sacramento River, San Joaquin River, and Delta system by 

providing a new design methodology.

5. The product of this charter will be a technical memorandum describing a simplified design 

procedure for rockwad habitat. We predict that the availability of this design document will 

increase the construction of rockwad habitats in the Sacramento River, San Joaquin River, 

and Delta System. In the long term, we predict that these projects will lead to a more 

continuous sequence of velocity and predator refugia, and as a result, the size and survival 

rates of out-migrating juveniles will increase. 

6. The majority of the funding for this project will support physical and numerical modeling 

tasks. While the physical experiments are a main cost driver, they benefit the project by 

ensuring that the models produce results consistent with field conditions. This project is 

intended as an investment, as the resulting technical memorandum will provide a streamlined 

approach for future habitat work. Cost-saving opportunities include: anticipated funding 

from Reclamation’s Science and Technology Program and choosing study reach based on 

the availability of bathymetric data. 

7. The fundamental objective of this project is to increase the availability of habitat for outmigrating juveniles. This design approach is intended to reduce mortality from disease 

(stress), predation, and inadequate feeding opportunities. Methods will be tested using the 

fish behavior algorithms to verify that proposed rockwads are utilized by juveniles. 

8. This project will provide estimates of velocity and predator habitat along a study reach. In a 

future charter, the rockwad habitat design will be implemented, and monitoring data will be 

available to import into DSM. 

9. This project is fundamental to reducing the mortality rate of out-migrating juveniles. If not 

implemented, the shortage of velocity and predator refugia will continue to limit the success 

of juvenile emigration. 

10. No stakeholder objections at this time.

Data Management

1. The objective of this research is to develop a method for increasing velocity and predator 

habitat with the anticipated result of increasing juvenile out-migration success. Expected 

findings include the amount of habitat area provided by a single rockwad, as well as design 

recommendations for placement patterns to achieve optimum habitat gain. Full 

implementation of the resulting rockwad design is planned in a future charter. Long-term 

pre- and post-project monitoring plans will be presented in that charter.

2. The PMT Data Steward will coordinate with external partners and biannually with the 

CVPIA Data Manager on the transmission of long-term monitoring and other pertinent data 

defined by the SIT and the PMT per the 2020 Data Guidance.

Field data will be recorded on data sheets or directly into a recording device/computer and 

transferred into a computer spreadsheet or database. The PMT Data Steward will coordinate 

with the CVPIA Data Manager on the transmission of relevant and pertinent data defined by 

the SIT and the PMT per the 2020 Data Guidance. Field data, analyses, and reports will be 

stored and backed up on a PMT computer/server.
208

Hydrodynamic models, AutoCAD drawings, and progress reports will be archived in the 

Design and Construction Branch in the Mid-Pacific Regional Office (MPRO). Fish behavior 

models and physical model results will be archived by the USACE’s Engineer Research and 

Development Center (ERDC). Design procedures will be published in a technical 

memorandum available on USBR internet site.

Data produced by this project may be used in the development of a sub-module of the 

Science Integration Team’s Salmon Decision Support Model(s). The Project Management 

Team Leader will coordinate with the CVPIA Science Coordinator on the development and 

submission of a SIT DSM Modification Proposal (using the standard proposal template), as 

well as ensure progress on completing the sub-module in cooperation with the Science 

Integration Team.

3. Contact: Jenna Paul (USBR-MPRO), Dave Smith (USACE-ERDC), Mark Gard (USFWS)

Risks

Risk Likelihood Impact

3D Rendering of rockwad not compatible with hydrodynamic 

model

2 2

Inter-agency collaboration challenges 1 2

Cost Estimate

Year Fund BOR FWS Total

2020 CVPRF $290,000 $0 $290,000

2020 S&T $155,000 $0 $155,000

2021 CVPRF $110,000 $0 $110,000

2021 S&T $70,000 $0 $70,000

2022 S&T $25,000 $0 $25,000

Total Cost: $650,000
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Internal Agency Resources Table

Type Name Rate Frac. MU Total Agency Fund Description

2020

Management

Labor Project Manager/ 

Engineer

$10,000 1 0 $10,000 BOR CVPRF Manage project through inter-office coordination, 

scheduling, reporting, budget monitoring, and other 

miscellaneous tasks. 

Research

Agreement Ecologist $150,000 1 0 $150,000 BOR CVPRF Simulate a variety of natural flow conditions in a large 

flume with prototype rockwad. Measure velocity field 

and other hydraulic data around prototype rockwad. 

Anticipated cost share with S&T Program.

Agreement Ecologist $70,000 1 0 $70,000 BOR S&T

Research

Labor Drafting Technician $40,000 1 0 $40,000 BOR CVPRF Develop point clouds of a prototype rockwad with 

Structure from Motion (SfM) and Terrestrial LiDAR 

Scanning techniques. Render a 3D solid of the 

rockwad in AutoCAD. 

Research

Labor Hydraulic Engineer $50,000 1 0 $50,000 BOR CVPRF Develop 3D hydrodynamic model (U2RANS) to 

simulate conditions of the prototype rockwad in the 

flume. Calibration and validation data obtained from 

the physical experiments. Anticipated cost share with 

S&T Program.

Labor Hydraulic Engineer $20,000 1 0 $20,000 BOR S&T

Research

Labor Hydraulic Engineer $25,000 1 0 $25,000 BOR CVPRF Develop 2D hydrodynamic model (SRH-2D) to 

simulate conditions of the prototype rockwad in the 

flume. Calibration and validation data obtained from 

3D results. Anticipated cost share with S&T Program.

Labor Hydraulic Engineer $37,500 1 0 $37,500 BOR S&T

Research

Labor Ecologist $15,000 1 0 $15,000 BOR CVPRF
210

Type Name Rate Frac. MU Total Agency Fund Description

Labor Ecologist $15,000 1 0 $15,000 BOR S&T Use ELAM approach to simulate fish behavior around 

the rockwad for hydraulic conditions modeled in the 

physical experiments, SRH-2D model, and U2RANS 

model. Anticipated cost share with S&T Program.

Research

Labor Fisheries Scientist $12,500 1 0 $12,500 BOR S&T Advise rockwad rendering, physical experiments, and 

modeling.

2021

Design

Labor Drafting Technician $10,000 1 0 $10,000 BOR CVPRF Produce bathymetric/topographical surface for 

hydraulic model and draft design drawing. 

Design

Labor Ecologist $35,000 1 0 $35,000 BOR CVPRF Use ELAM approach to simulate fish behavior in the 

study reach. ELAM simulations based on output from 

2D hydrodynamic models of various rockwad habitat 

designs. Anticipated cost share with S&T Program.

Labor Ecologist $17,500 1 0 $17,500 BOR S&T

Design

Labor Hydraulic Engineer $55,000 1 0 $55,000 BOR CVPRF Develop 2D hydrodynamic models (SRH-2D) to 

evaluate several rockwad habitat designs within a 

study reach. Determine optimum size, quantity, and 

placement pattern. Anticipated cost share with S&T 

Program.

Labor Hydraulic Engineer $37,500 1 0 $37,500 BOR S&T

Design

Labor Hydraulic Engineer $5,000 1 0 $5,000 BOR S&T Review hydraulic models.

Design

Labor Fisheries Scientist $10,000 1 0 $10,000 BOR S&T Advise development of rockwad design alternatives, 

hydraulic modeling, and fish behavior simulations.

Management

Labor Project Manager/ 

Engineer

$10,000 1 0 $10,000 BOR CVPRF Manage project through inter-office coordination, 

scheduling, reporting, budget monitoring, and other 

miscellaneous tasks. 
211

Type Name Rate Frac. MU Total Agency Fund Description

2022

Design

Labor Project Manager/ 

Engineer

$25,000 1 0 $25,000 BOR S&T Write final technical memorandum.
212

San Joaquin River: Sturgeon Bend White Sturgeon Spawning 

Habitat Enhancement Project 

The project will enhance White Sturgeon spawning habitat near the confluence of the San Joaquin 

and Stanislaus rivers. 

Classification: Improvement, Habitat Restoration

Location: Sturgeon Bend, San Joaquin Lower Mainstem

Funding Years: 2021 - 2026

Benefits Start Year: 2023

Priority: - This project addresses the FY20 Priority for White Sturgeon of “High inchannel flows (spawning) and manipulate temperatures in spawning and 

rearing areas of San Joaquin River.” This priority has been identified as data 

limited and this project would be the first sturgeon spawning restoration 

project in the Central Valley; results would improve DSM model predictions 

and address the FY20 Monitoring Priorities for sturgeon of “adult spawner 

abundance estimate” and “spawning habitat.”

Partners: Cramer Fish Sciences

Related Programs: CALFED, AFRP, CVPIA b1, NMFS-RP

Authority

Provision Percentage

(b)(1) AFRP 100.0%

Metrics

Name Value Units Comment

Stream Channel restored 

(miles)

1 miles Sturgeon spawning habitat.

Gravel augmentation 

(cubic yards)

15000 cubic 

yards

Placed in-channel to provide spawning gravel for 

spawning sturgeon.

Sturgeon spawning 

habitat area enhanced 

(acres)

4 acres Adult sturgeon in-channel spawning habitat.

Fish Supported -

Sturgeon

64 number of 

fish

Adult spawning sturgeon supported using a 

density of 16 fish/acre.

Deliverables

Date Title

Dec. 2022 Report - Pre-Monitoring

Dec. 2025 Report - Construction Monitoring

Dec. 2022 Report - Conceptual Design(s)

Dec. 2024 Report - Basis of Design
213

Date Title

Dec. 2022 Monitoring Plan

Dec. 2025 Final Report - ALL Project

Dec. 2025 Final Designs - 'As-Built'

Dec. 2023 Report - Permit Applications

Narrative

The Sturgeon Bend spawning habitat enhancement project will improve white sturgeon spawning 

habitat through in-channel improvements in the San Joaquin River near the confluence with the 

Stanislaus River. The project would benefit spawning White Sturgeon.

Project work consists of large substrate augmentation to support spawning of adult White sturgeon. 

This would be the FIRST sturgeon spawning restoration project in the Central Valley. The project is 

estimated to provide approximately 4 acres of Adult sturgeon in-channel spawning habitat, 

supporting roughly 64 adult sturgeon. 

The project will increase opportunity for successful sturgeon spawning events through increased 

habitat and will coordinate pulse flows managed from the Stanislaus (SOG) and Tuolumne 

(TRTAC) to best utilize the improved habitat. We will develop a monitoring plan in collaboration 

with the SIT to ensure appropriate high quality (baseline and post-project) information is collected 

and analyzed to improve the DSM and foster adaptive management. This project will determine if 

changes in sturgeon spawning habitat in the San Joaquin River can provide population benefits. 

Results from this study will inform future modeling for habitat scenarios and fill data gaps regarding 

white sturgeon spawning habitat restoration. The project will specifically address the DSM 

parameters relating to white sturgeon spawning habit and help refine the white sturgeon DSM.

The project addresses abundance (FRP doubling goals for sturgeon), productivity, and life-history 

diversity metrics for the San Joaquin Basin tributaries and the Central Valley. The project addresses 

AFRP FRP actions (SJR E1, E3, E4), CVPIA FY20 Call for Proposals (Sturgeon: spawning habitat; 

Sturgeon Monitoring: adult spawner abundance estimate, spawning habitat). 

This project is cost-effective since most funding is for project implementation. 

By not implementing this project we miss an opportunity to improve the sturgeon DSM model, 

reducing the viability of using the DSM to manage of these species. Sturgeon spawning habitat in 

lower mainstem San Joaquin River will likely continue to be limiting. 

There are no known stakeholder objections.

Data Management

Short term monitoring work will include pre-implementation data collection to establish a baseline, 

and post-implementation data collection to compare to the baseline for evaluation of the project’s 

contribution to the doubling goal, including measures of available spawning habitat, and adult 

sturgeon utilization of the habitat. The project will also include as-built surveys to allow for 

assessment of habitat changes in the future. Data will be housed on the USFWS server and with 

public access upon request.
214

Data will be made available for submittal to the Center for Data Management.

There are no current plans to implement long-term monitoring. It will be useful to assess the 

effectiveness of the project over time and determine what level of maintenance is necessary to 

maintain sturgeon spawning habitat quality.

Project monitoring will utilize appropriate standardized protocols and where available, any CVPIA 

data management standards, including submittal to Center for Data Management when available. 

Post-project monitoring should offer an opportunity to better understand white sturgeon spawning 

habitat qualities and will be conducted in collaboration with SIT to ensure maximum usefulness to 

the DSM. 

Contact J.D. Wikert - USFWS for data and reports

Risks

Risk Likelihood Impact

ESA and permitting delays 1 2

Unfavorable Hydrology Delays Construction 1 1

Cost Estimate

Year Fund Total BOR FWS

2020 CVPRF $479,120 $0 $479,120

2022 CVPRF $882,980 $0 $882,980

Total Cost: $1,362,100
215

Internal Agency Resources Table

Type Name Rate Frac. MU Total Agency Fund Description

2020

Design

Agreement Agreement -

Construction Design

$150,000 1.00 0.06 $159,000 FWS CVPRF

Environmental Compliance 

and Permitting

Agreement Agreement - Permitting $155,000 1.00 0.06 $164,300 FWS CVPRF

Management

Agreement Agreement - Project 

Management 

$20,000 1.00 0.06 $21,200 FWS CVPRF

Monitoring

Agreement Agreement - Monitoring $50,000 1.00 0.06 $53,000 FWS CVPRF

Outreach

Labor Labor Expenditure $17,000 1.00 0.06 $18,020 FWS CVPRF

Reporting

Agreement Reporting $10,000 1.00 0.06 $10,600 FWS CVPRF

Research

Agreement Site Surveys $50,000 1.00 0.06 $53,000 FWS CVPRF

2022

Implementation

Agreement Project Implementation $700,000 1.00 0.06 $742,000 FWS CVPRF

Management

Agreement Agreement - Project 

Management

$20,000 1.00 0.06 $21,200 FWS CVPRF

Monitoring

Agreement Agreement - Monitoring $75,000 1.00 0.06 $79,500 FWS CVPRF

Outreach

Labor Labor Expenditure $13,000 1.00 0.06 $13,780 FWS CVPRF

Reporting

Agreement Reporting $25,000 1.00 0.06 $26,500 FWS CVPRF
216

Tuolumne and San Joaquin River Juvenile Habitat Assessment at 

Dos Rios Ranch

The Division of Planning wants to prepare an Environmental Assessment to evaluate suitable 

habitat for Fall-Run Chinook Salmon at various flow rates due to the proposed Dos Rios Ranch 

Preserve and utilize the SIT DSM to estimate change in survival rates.

Classification: Improvement, FloodPlain

Location: Dos Rios Ranch, Confluence of Tuolumne and San Joaquin River, San 

Joaquin Lower Mainstem

Funding Years: 2019 - 2020

Benefits Start Year: 2020

Priority: 1 - Address priority to increase perennially inundated juvenile habitat for 

Fall-Run Chinook Salmon on the Lower San Joaquin River upstream of 

Tuolumne River, benefiting all upstream production.

Partners: FWS, River Partners

Related Programs: AFRP

Authority

Provision Percentage

(b)(1) AFRP 100.0%

Metrics

Name Value Units Comment

Habitat Assessment 750 acres The Dos Rios Ranch Preserve Project consists of 

actively restoring 745 acres of floodplain habitat, 

according to the “Dos Rios Ranch Floodplain 

Expansion and Ecosystem Restoration Project” by 

MBK Engineers in partnership with River Partners. 

The scope of this proposal is to evaluate how 

much of that habitat is suitable for Fall-Run 

Chinook Salmon at various flows to calculate 

change in survival rates in the SIT DSM.

Deliverables

Date Title

Sep. 2020 Deliverable #5: Environmental Assessment Document

Apr. 2020 Deliverable #2: Technical Memorandum categorizing HEC-RAS results 

with DSM Watersheds.

Mar. 2020 Deliverable #1: Technical Memorandum of HEC-RAS model results

May. 2020 Deliverable #3: Technical Memorandum of evaluating suitable habitat at 

project location.
217

Date Title

Jul. 2020 Deliverable #4: Final Report of Modeling with the DSM for Fall-Run 

Chinook Salmon.

Narrative

The 2,100-acre Dos Rios Ranch Preserve Project, located at the confluence of the Tuolumne and 

San Joaquin rivers, is situated in an ecologically critically area designated by federal and state 

agencies, has the potential to restore 745-acres of floodplain habitat for Fall-Run Chinook Salmon in 

the Lower San Joaquin River, a priority of the Science Integration Team (SIT), along with additional 

habitat for Central Valley Steelhead and other riparian species. Reclamation wants to assess the 

amount of suitable habitat for Fall-Run Chinook Salmon at various flows along the Tuolumne and 

Stanislaus Rivers to establish a flow-habitat relationship that would improve the survival rate 

calculations in the DSM, which will inform decision-makers of a quantified benefit in constructing 

the Dos Rios Ranch Preserve. The Project Management Team will accomplish this goal by 

completing a series of technical memoranda, which will result in a final report of model updates to 

the DSM for Fall-Run Chinook Salmon and an Environmental Assessment document. The benefit 

of this work will produce a need for an implementation charter in Fiscal Year 2021 and beyond.

Data Management

Data generated from model development will be hosted on the Reclamation Division of Planning 

servers and will be shared with Project Management Team Members and FlowWest, as part of the 

data management strategy for the Science Integration Team. Distribution of data will be available 

upon request; contact Jim Shannon at (916) 978-5060 or jshannon@usbr.gov. 

HEC-RAS model will be added to the Science Integration Team stable of modeling tools (managed 

by FlowWest).

Risks

Risk Likelihood Impact

Scheduling operation negotiations with San Joaquin River 

National Wildlife Refuge Operators.

1 2

Cost Estimate

Year Fund Total BOR FWS

2020 CVPRF $150,000 $150,000 $0

Total Cost: $150,000
218

Internal Agency Resources Table

Type Name Rate Frac. MU Total Agency Fund Description

2020

Planning and Analysis

Labor Contractor $40,000 1.00 0.00 $40,000 BOR CVPRF

Labor USBR Staff $110,000 1.00 0.00 $110,000 BOR CVPRF
219

Lower Mokelumne: River Salmonid Spawning and Rearing Habitat 

Improvement Project

The placement, sorting, and harvesting of gravel and cobble (1/4”-5”) to maintain restored 

spawning habitat in the lower Mokelumne River.

Classification: Improvement, Spawning Gravel

Location: 38.22596, -121.02368, Mokelumne River

Funding Years: 2016 - 2021

Benefits Start Year: 2017

Priority: 4 - Next portion of ONGOING and highly successful spawning/rearing 

habitat restoration between AFRP and EBMUD on the Mokelumne River. 

This is in line with the following CVPIA SIT / Core Teams 

recommendations: maintain spawning habitat in the CVP streams and other 

CV streams where prior CVPIA investments in gravel restoration were made.

Partners: EBMUD

Related Programs: NMFS-RP

Authority

Provision Percentage

(b)(1) AFRP 100.0%

Metrics

Name Value Units Comment

Restored Floodplain 

Habitat

10 acres Depending on final site designs and constraints, 3-

10 acres of floodplain habitat will be restored

Spawning habitat 3 acres Depending on final site designs and constraints, 

up to 3 acres of additional in-river spawning 

habitat will be created

Spawning Gravel 5000 cubic 

yards

Depending on final site designs and constraints, 

1,000-5,000 cubic yards of gravel will be harvested 

from restored floodplain habitats and placed inriver.

Deliverables

Date Title

Dec. 2015 FY15 Mokelumne Spawning Gravel Project Annual Report

Dec. 2016 FY16 Mokelumne Spawning Gravel Project Annual Report

Dec. 2017 FY17 Mokelumne Spawning and Rearing Habitat Project Annual Report

Dec. 2018 FY18 Mokelumne Spawning and Rearing Habitat Project Annual Report

Dec. 2019 FY19 Mokelumne Spawning and Rearing Habitat Project Annual Report
220

Date Title

Dec. 2020 FY20 Mokelumne Spawning and Rearing Habitat Project Annual Report

Dec. 2021 5-year Technical Report - Mokelumne Spawning and Rearing Habitat 

Project

Dec. 2021 FY21 Mokelumne Spawning and Rearing Habitat Project Annual Report

Narrative

This ongoing project addresses the 2020 SIT priority maintain spawning habitat in the CVP streams 

and other CV streams where prior CVPIA investments in gravel restoration were made.

Quantitative prediction of expected outcome: For purposes of testing the CVPIA DSMs, 

completion of this charter is expected to increase available juvenile rearing habitat by 3-10 acres 

during crucial spring rearing periods and provide an additional 11,500 square meters of spawning 

habitat.

Spawning gravel will be primarily obtained through the excavation and recontouring of the lower 

Mokelumne River stream bank and provide the added benefit of creating seasonal floodplain 

habitats for juvenile salmonid rearing. The objectives of the proposed rearing habitat portion of the 

project are to incorporate juvenile salmonid rearing habitat with the long-term spawning habitat 

rehabilitation that has occurred on the Mokelumne River since 1990. The specific objectives include; 

improve juvenile survival by providing habitat that promotes primary production and 

macroinvertebrate production for food, provide shallow water habitat for protection from 

predation, and encourage freshwater rearing to a larger size, ultimately, increasing the survival of 

juvenile fall-run Chinook Salmon and steelhead trout in the Mokelumne River. Floodplain habitat 

will be designed to seasonally inundate under current flow regimes on the lower Mokelumne River 

to maximize effectiveness. Additionally, creating floodplain rearing habitat will produce materials for 

continued spawning habitat improvement and maintenance of the long-term progress made via the 

CVPIA & EBMUD-funded projects that have occurred to date (as other local commercial spawning 

gravel sources are no longer generally available).

The objectives of the proposed spawning habitat rehabilitation activities are to increase available and 

usable spawning areas by providing spawning gravels within the appropriate size range; increase use 

of spawning habitat; improve gravel permeability and intergravel water quality; decrease redd 

superimposition (Merz 1998); and, ultimately, increase the natural production of fall-run Chinook 

Salmon and steelhead trout in the Mokelumne River. Increased gravel substrate will also increase 

production of aquatic invertebrates (Ochikubo Chan 2003), the food base for juvenile salmonids.

Data Management

Objective specific monitoring will access the function and biological use of restored floodplain 

habitats. Topography surveys, 2D hydrodynamic modeling, and juvenile fish monitoring will be 

performed before and after restoration takes place. To assess differences in primary production, 

benthic macroinvertebrate and fish diet samples will be taken and compared between in-channel and 

newly created floodplain habitats.
221

Long-Term Trend monitoring (LTT) will continue on the lower Mokelumne River. Salmonid redd 

surveys are conducted on a weekly basis throughout each spawning season (October through 

March). Chinook salmon and O. mykiss redds are enumerated and each spawning location is marked 

using a high resolution GNSS unit. Rotary Screw traps are monitored from December through June 

to assess number, timing and size of rearing and outmigrating juvenile salmonids.

EBMUD collects and manages all data related to this project and provides electronic copies to 

AFRP staff. Secure electronic data backups will be retained by EBMUD and USFWS. Additionally, 

data and analyses will be provided to CVPIA Fisheries.

Risks

Risk Likelihood Impact

Gravel availability. There is a potential that some of the floodplain 

areas will contain less appropriately sized gravel than modeling 

indicates. However, EBMUD has identified several other potential 

gravel sources on their property within the Mokelumne Watershed.

2 1

Obtaining permits. EBMUD and USFWS have recently completed 

permits associated with this work that remain valid through FY19. 

Renewing permits for work past FY19 will require some effort, but is 

not expected to slow any progress on this charter

1 1

Cost Estimate

Year Fund Total BOR FWS Local

2017 $62,500 $0 $0 $62,500

2017 CVPRF $53,000 $0 $53,000 $0

2018 $62,500 $0 $0 $62,500

2018 CVPRF $121,900 $0 $121,900 $0

2019 $62,500 $0 $0 $62,500

2019 CVPRF $121,900 $0 $121,900 $0

2020 SIK $72,500 $0 $0 $72,500

2020 CVPRF $121,900 $0 $121,900 $0

2021 SIK $72,500 $0 $0 $72,500

2021 CVPRF $121,900 $0 $121,900 $0

2017 SIK $30,000 $0 $0 $30,000

Total Cost: $903,100
222

Internal Agency Resources Table

Type Name Rate Frac. MU Total Agency Fund Description

2017

Implementation

In-Kind Labor EBMUD project 

implementation, 

oversight, modeling and 

monitoring

$62,500 1.00 0.00 $62,500 Local

Agreement AFRP Mokelumne River 

Spawning Gravel 

Improvement Grant

$50,000 1.00 0.06 $53,000 FWS CVPRF Financial Assistance Agreement that will 

fund floodplain excavation, material 

sorting, contouring of restored 

floodplain habitat and in-channel 

placement of spawning gravel.

Monitoring

In-Kind Labor EBMUD $30,000 1.00 0.00 $30,000 Local SIK $10,000/project for pre-project and 

post-project fisheries monitoring. 

Funding will include labor, fish tags, fish 

traps, cameras, other monitoring 

equipment.

2018

Implementation

In-Kind Labor EBMUD project 

implementation, 

oversight, modeling and 

monitoring

$62,500 1.00 0.00 $62,500 Local

Agreement AFRP Mokelumne River 

Spawning Gravel 

Improvement Grant

$115,000 1.00 0.06 $121,90

0

FWS CVPRF Financial Assistance Agreement that will 

fund floodplain excavation, material 

sorting, contouring of restored 

floodplain habitat and in-channel 

placement of spawning gravel.
223

Type Name Rate Frac. MU Total Agency Fund Description

2019

Implementation

In-Kind Labor EBMUD project 

implementation, 

oversight, modeling and 

monitoring

$62,500 1.00 0.00 $62,500 Local

Agreement AFRP Mokelumne River 

Spawning Gravel 

Improvement Grant

$115,000 1.00 0.06 $121,90

0

FWS CVPRF Financial Assistance Agreement that will 

fund floodplain excavation, material 

sorting, contouring of restored 

floodplain habitat and in-channel 

placement of spawning gravel.

2020

Implementation

In-Kind Labor EBMUD project 

implementation, 

oversight, modeling and 

monitoring

$62,500 1.00 0.00 $62,500 Local SIK

Agreement AFRP Mokelumne River 

Spawning Gravel 

Improvement Grant

$115,000 1.00 0.06 $121,90

0

FWS CVPRF Financial Assistance Agreement that will 

fund floodplain excavation, material 

sorting, contouring of restored 

floodplain habitat and in-channel 

placement of spawning gravel. 

Monitoring

In-Kind Labor EBMUD $10,000 1.00 0.00 $10,000 Local SIK $10,000 for pre-project and postproject fisheries monitoring. Funding 

will include labor, fish tags, fish traps, 

cameras, other monitoring equipment.

2021

Implementation

In-Kind Labor EBMUD project 

implementation, 

oversight, modeling and 

monitoring

$62,500 1.00 0.00 $62,500 Local SIK
224

Type Name Rate Frac. MU Total Agency Fund Description

Agreement AFRP Mokelumne River 

Spawning Gravel 

Improvement Grant

$115,000 1.00 0.06 $121,90

0

FWS CVPRF Financial Assistance Agreement that will 

fund floodplain excavation, material 

sorting, contouring of restored 

floodplain habitat and in-channel 

placement of spawning gravel. 

Monitoring

In-Kind Labor EBMUD $10,000 1.00 0.00 $10,000 Local SIK $10,000 for pre-project and postproject fisheries monitoring. Funding 

will include labor, fish tags, fish traps, 

cameras, other monitoring equipment.
225

2020 Annual Work Plan Public Draft

Refuge Water Supply Program

Charters

Central Valley Project Improvement Act

Title XXXIV of Public Law 102-575
226

Incremental Level 4 Refuge Water Conveyance 

Conveyance of surface water and groundwater pumping for refuges

DCN: 20RWSP001

Classification: Improvement, Administration

Location: Central Valley wide

Funding Years: 2019 - 2022

Benefits Start Year: 2020

Priority: 3 - Refuge Water Supply Program - Priority Ranking Numbers & Definitions:

1) Administration (RWSP staff and technical support);

2) Level 2 conveyance (L2) water conveyance and facilities construction;

3) Incremental Level 4 (IL4) acquisitions and conveyance; and

4) Unfunded needs.

Partners: CDFW, FWS, GWD

Related Programs: No Data.

Authority

Provision Percentage

(d)(2) Refuge Acquisition IL4 100.0%

Metrics

Name Value Units Comment

Conveyance: Inc L4 Refuge Water 

Conveyance (annual)

0 acrefeetInc L4 Water with no Conveyance Cost to RWSP 

for WY2019

Conveyance: Inc L4 Refuge Water 

Conveyance (annual)

0 acrefeetInc L4 Surface Water Conveyance for WY2019

Conveyance: Inc L4 Refuge Water 

Conveyance (annual)

0 acrefeetInc L4 Groundwater Pumping for WY2019

Deliverables

Date Title

Mar. 2020 Conveyance of Incremental Level 4 Water Supplies

Narrative

Conveyance of Incremental (Inc.) Level 4 refuge water supplies to CVPIA refuges. This includes 

annually acquired surface water, purchased permanent surface water, and pumped groundwater. 

The conveyance of Incremental Level 4 (IL4) surface water supplies requires conveyance contracts 

with a number of conveying entities. Due to the geographical location of the refuges, direct delivery 

of water to a refuge boundary from Reclamation conveyance facilities can only be achieved for two 
227

of the 19 refuges. The remaining refuges receiving surface water deliveries require up to 3 

conveying entities (including Reclamation facilities) for water to reach their boundaries. For the 

purpose of this charter, the primary conveyor represents the contracted conveyor conveying the 

initial diversion of refuge water supplies. In most cases, this water is then delivered to another 

conveying entity (secondary conveyor) with facilities in closer proximity to specific refuges. In some 

instances, the secondary conveyor completes the conveyance, delivering water to the refuge 

boundary. In other instances, a third conveying entity (tertiary conveyor) is necessary to complete 

refuge water conveyance due to the distances between certain refuges and available conveyance 

facilities. The secondary conveyor moves refuge water into the tertiary conveyor’s system for final 

delivery to refuge boundaries. 

-- FY20 represents projected costs to convey Incremental Level 4 water supplies to those CVPIA 

refuges with sufficient external conveyance capacity in Contract Water Year 2020 (March 1, 2020, 

thru February 28, 2021).

-- FY21 represents projected costs to convey Incremental Level 4 water supplies to those CVPIA 

refuges with sufficient external conveyance capacity in Contract Water Year 2021 (March 1, 2020, 

thru February 28, 2022).

--FY22 represents projected costs to convey Incremental Level 4 water supplies to those CVPIA 

refuges with sufficient external conveyance capacity in Contract Water Year 2022 (March 1, 2021, 

thru February 28, 2023)

Incremental Level 4 metrics (acre-feet estimates), both surface and ground water, for FY2020-2022 

were developed with data available as of 5/2019.

Data Management

Contract and agreement records are maintained in the Bureau of Reclamation’s Acquisitions 

Division and Resources Division. Delivery data is maintained on the Bureau of Reclamation’s 

computer network server. Flow data for Gray Lodge Wildlife Area surface water is available on the 

internet at https://www.usbr.gov/mp/glwa/index.php.

Risks

Risk Likelihood Impact

Conveyance contractor default 1 3

Unfavorable hydrology 1 3

Cost Estimate

Year Fund Total BOR FWS

2020 CVPRF $1,177,880 $1,177,880 $0

2021 CVPRF $2,393,806 $2,393,806 $0

2022 CVPRF $2,661,748 $2,661,748 $0

Total Cost: $6,233,434
228

Internal Agency Resources Table

Type Name Rate Frac MU Total Agency Fund Description

2020

Implementation

Agreement Glenn-Colusa Irrigation 

District Agreement 

#R13AC20502 - IL4 Surface 

Water Conveyance

$400,000 1.00 0.00 $400,000 BOR CVPRF Convey surface water to Delevan NWR 

(10,455 AF of permanently acquired NOD 

Incremental Level 4 water. (Included in 

Inc. L4 Surface Water Conveyance in 

50,650 AF in Benefit section).

Agreement PG&E Contract 

#R15PD00454 - IL4 

Groundwater Pumping 

(Power Costs)

$135,020 1.00 0.00 $135,020 BOR CVPRF Electrical power costs for pumping IL4 

groundwater from wells on Pixley NWR. 

(1000 AF included in Inc. L-4 

Groundwater Pumped Benefit of 2,000).

Agreement Grassland Water District 

Agreement #17WC205027 -

IL4 Surface Water 

Conveyance

$80,000 1.00 0.00 $80,000 BOR CVPRF Convey surface water to Los Banos WA 

and Salt Slough Unit of N. Grasslands 

WA. (AF included in 50,650 of Inc. L4 

Surface Water Conveyance in Benefit 

section).

Agreement Henry Miller Reclamation 

District Contract 

#17WC205028 - IL4 Surface 

Water Conveyance

$44,000 1.00 0.00 $44,000 BOR CVPRF Convey surface water to Los Banos WA 

and Grassland Resource Conservation 

District. (AF included in 50,650 of Inc. L4 

Surface Water Conveyance in Benefit 

section).

Agreement Buena Vista Water Storage 

District Agreement 

#R10AC20683 - IL4 Surface 

Water Conveyance

$180,000 1.00 0.00 $180,000 BOR CVPRF Convey surface water to Kern. (Included 

in Inc. L4 Surface Water Conveyance in 

Benefit 50,650).

Agreement CA Dept. of Water 

Resources Agreement 

#12WC204346 - IL4 Surface 

Water Conveyance

$48,000 1.00 0.00 $48,000 BOR CVPRF Convey surface water to tertiary 

conveyor for Kern NWR (Included in Inc. 

L4 Surface Water Conveyance in Benefit 

50,650).
229

Type Name Rate Frac MU Total Agency Fund Description

Agreement CA Dept. of Fish & Wildlife 

Reimbursement Agreement 

#15WC204671 - IL4 

Groundwater Pumping SOD

$0 1.00 0.00 $0 BOR CVPRF Actual NEED is $50,000 – will use existing 

funds on Agreement. Costs for pumping 

IL4 groundwater developed on SOD 

Wildlife Areas & lift pumping IL4 surface 

water onto SOD WAs-1,000 AF 

developed groundwater (AF included in 

Inc Level 4 Groundwater Pumped Benefit 

of 2,000)

Agreement San Luis Delta- Mendota 

Water Authority Agreement 

#80720X0 354 - IL4 Surface 

Water Conveyance

$0 1.00 0.00 $0 BOR CVPRF Actual NEED is $1,600,000 will use 

existing IL4 funds on Agreement for 

FY2020. Convey surface water to 

secondary & tertiary conveyors for Kern 

NW; Los Banos & Mendota WAs; China 

Island & Salt Slough Units of N. 

Grasslands WA; and Grassland Resource 

Conservation District. (AF included in 

50,650 of Inc

Agreement Incremental Level 4 

Conveyance at NO Cost to 

RWSP

$0 1.00 0.00 $0 BOR CVPRF IL4 water delivered with no conveyance 

costs to RWSP. (2,500 AF surface water 

via Merced ID FERC license mitigation 

requirement; & 20,000 AF groundwater 

on GRCD.) (AF included in “Inc L4 Water 

with No Conveyance Cost to RWSP' 

Benefit section)

Agreement Central California Irrigation 

District Contract 

#17WC205023 - IL4 Surface 

Water Conveyance

$200,000 1.00 0.00 $200,000 BOR CVPRF Convey surface water to China Island 

Unit of N. Grasslands WA and to tertiary 

conveyor for Los Banos WA; Salt Slough 

Unit of N. Grasslands WA; and Grassland 

Resource Conservation District. (AF 

included in 50,650 of Inc. L4 Surface 

Water Conveyance in Benefit section).
230

Type Name Rate Frac MU Total Agency Fund Description

Monitoring

Equipment or 

Materials

IL4 Water Quality 

Monitoring SOD WAs - 2 

LABS: SD Ag - BPA 

#R13PA20140; and WET -

BPA #R11PA20028

$37,240 1.00 0.00 $37,240 BOR CVPRF Costs for laboratory analysis of water 

samples and supplies for IL4 

groundwater quality monitoring program 

related to CDFW SOD WAs 

Reimbursement Agreement.

Technical Support

Labor CDFW R-4 Was water 

quality monitoring

$275,225 .18 0.00 $49,540 BOR CVPRF Technical support labor involved for 

MP156/157 staff to provide water quality 

monitoring 

Labor Agreement and contract 

modifications

$102,003 .04 0.00 $4,080 BOR CVPRF MP3800 Contracts Division technical 

support to process agreement and 

contract modifications 

2021

Implementation

Agreement Glenn-Colusa Irrigation 

District Agreement 

#R13AC20502 - IL4 Surface 

Water Conveyance

$272,000 1.00 0.0

3

$280,160 BOR CVPRF Convey surface water to Kern NWR 

(1,706 AF of permanent purchased NOD 

Inc. Level 4 water via reallocation/transfer 

from NOD to SOD; and 5,600 AF via E. 

Bear Creek Unit groundwater/CVP 

exchange projects). (Included in Inc. L4 

Surface Water Conveyance in Benefit 

39,757).

Agreement Henry Miller Reclamation 

District Contract 

#17WC205028 - IL4 Surface 

Water Conveyance

$18,000 1.00 0.0

3

$18,540 BOR CVPRF Convey surface water to Los Banos WA 

and Grassland Resource Conservation 

District. (AF included in 39,757 of Inc. L4 

Surface Water Conveyance in Benefit 

section).

Agreement PG&E Contract 

#R15PD00454 - IL4 

Groundwater Pumping 

(Power Costs)

$75,519 1.00 0.0

3

$77,785 BOR CVPRF Electrical power costs for pumping IL4 

groundwater from wells on Pixley NWR. 

(1000 AF included in Inc. L-4 Groundwater Pumped Benefit of 2,500).
231

Type Name Rate Frac MU Total Agency Fund Description

Agreement CA Dept. of Water 

Resources Agreement 

#12WC204346 - IL4 Surface 

Water Conveyance

$46,000 1.00 0.0

3

$47,380 BOR CVPRF Convey surface water to tertiary 

conveyor for Kern NWR (1,706 AF of 

permanent purchased NOD Inc. Level 4 

water via reallocation/transfer from NOD 

to SOD; and 5,600 AF via E. Bear Creek 

Unit groundwater/ CVP exchange 

projects). (Included in Inc. L4 Surface 

Water Conveyance in Benefit 39,757).

Agreement Central California Irrigation 

District Contract 

#17WC205023 - IL4 Surface 

Water Conveyance

$310,000 1.00 0.0

3

$319,300 BOR CVPRF Convey surface water to China Island 

Unit of N. Grasslands WA and to tertiary 

conveyor for Los Banos WA; Salt Slough 

Unit of N. Grasslands WA; and Grassland 

Resource Conservation District. (AF 

included in 39,575 of Inc. L4 Surface 

Water Conveyance in Benefit section).

Agreement San Luis Delta- Mendota 

Water Authority Agreement 

#80720X0 354 - IL4 Surface 

Water Conveyance

$1,326,00

0

1.00 0.0

3

$1,365,78

0

BOR CVPRF Convey surface water to secondary & 

tertiary conveyors for Kern NW; Los 

Banos &

Mendota WAs; China Island & Salt 

Slough Units of N. Grasslands WA; and 

Grassland Resource Conservation 

District. (AF included in 39,757 of Inc. L4 

Surface Water Conveyance in Benefit 

section).

Agreement CA Dept. of Fish & Wildlife 

Reimb Agreement 

#15WC204671 - IL4 

Groundwater Pumping SOD

$57,750 1.00 0.0

3

$59,483 BOR CVPRF Costs for pumping Inc. L4 groundwater 

water developed on SOD Wildlife Areas 

(WA) and lift pumping of Inc. L4 surface 

water onto SOD WAs – 1,500 AF 

developed groundwater. (Acre-feet 

included in Incremental Level 4 

Groundwater Pumped Benefit of 2,500)
232

Type Name Rate Frac MU Total Agency Fund Description

Agreement Grassland Water District 

Contract #17WC205027 -

IL4 Surface Water 

Conveyance

$144,000 1.00 0.0

3

$148,320 BOR CVPRF Convey surface water to Los Banos WA 

and Salt Slough Unit of N. Grasslands 

WA. (AF included in 39,757 of Inc. L4 

Surface Water Conveyance in Benefit 

section).

Agreement Incremental Level 4 

Conveyance at NO Cost to 

RWSP

$0 1.00 0.0

0

$0 BOR CVPRF Inc L4 water delivered with no 

conveyance costs to RWSP. (2,500 AF 

surface water via Merced ID FERC license 

mitigation requirement.) (AF included in 

‘Inc L4 Water with No Conveyance Cost 

to RWSP’ Benefit section)

Monitoring

Equipment or 

Materials

IL4 Water Quality 

Monitoring SOD WAs - 2 

LABS: SD Ag - BPA 

#R13PA20140; and WE

$21,194 1.00 0.0

3

$21,830 BOR CVPRF Costs for laboratory analysis of water 

samples and supplies for Inc. L4 

groundwater quality monitoring program 

related to CDFW SOD WAs 

Reimbursement Agreement.

Technical Support

Labor CDFW R-4 Was water 

quality monitoring

$283,481 .18 0.0

3

$51,026 BOR CVPRF Technical support labor involved for 

MP156/157 staff to provide water quality 

monitoring 

Labor Agreement and contract 

modifications

$105,063 .04 0.0

3

$4,202 BOR CVPRF MP3800 Contracts Division technical 

support to process agreement and 

contract modifications 

2022

Implementation

Agreement CA Dept. of Fish & Wildlife 

Reimbursement Agreement 

#15WC204671 - IL4 

Groundwater Pumping SOD

$57,750 1.00 0.0

6

$61,215 BOR CVPRF Costs for pumping Inc. L4 groundwater 

water developed on SOD Wildlife Areas 

(WA) and lift pumping of Inc. L4 surface 

water onto SOD WAs – 1,500 AF 

developed groundwater. (Acre-feet 

included in Incremental Level 4 

Groundwater Pumped Benefit of 2,500)
233

Type Name Rate Frac MU Total Agency Fund Description

Agreement San Luis Delta- Mendota 

Water Authority Agreement 

#80720X0 354 - IL4 Surface 

Water Conveyance

$1,326,00

0

1.00 0.0

6

$1,405,56

0

BOR CVPRF Convey surface water to secondary & 

tertiary conveyors for Kern NW; Los 

Banos &

Mendota WAs; China Island & Salt 

Slough Units of N. Grasslands WA; and 

Grassland Resource Conservation 

District. (AF included in 39,757 of Inc. L4 

Surface Water Conveyance in Benefit 

section).

Agreement CA Dept. of Water 

Resources Agreement 

#12WC204346 - IL4 Surface 

Water Conveyance

$46,000 1.00 0.0

6

$48,760 BOR CVPRF Convey surface water to tertiary 

conveyor for Kern NWR (1,706 AF of 

permanent purchased NOD Inc. Level 4 

water via reallocation/transfer from NOD 

to SOD; and 5,600 AF via E. Bear Creek 

Unit groundwater/ CVP exchange 

projects). (Included in Inc. L4 Surface 

Water Conveyance in Benefit 39,757).

Agreement Grassland Water District 

Contract #17WC205027 -

IL4 Surface Water 

Conveyance

$144,000 1.00 0.0

6

$152,640 BOR CVPRF Convey surface water to Los Banos WA 

and Salt Slough Unit of N. Grasslands 

WA. (AF included in 39,757 of Inc. L4 

Surface Water Conveyance in Benefit 

section).

Agreement Central California Irrigation 

District Contract 

#17WC205023 - IL4 Surface 

Water Conveyance

$310,000 1.00 0.0

6

$328,600 BOR CVPRF Convey surface water to China Island 

Unit of N. Grasslands WA and to tertiary 

conveyor for Los Banos WA; Salt Slough 

Unit of N. Grasslands WA; and Grassland 

Resource Conservation District. (AF 

included in 39,575 of Inc. L4 Surface 

Water Conveyance in Benefit section).

Agreement Glenn-Colusa Irrigation 

District Agreement 

#R13AC20502 - IL4 Surface 

Water Conveyance

$285,000 1.00 0.0

6

$302,100 BOR CVPRF Convey surface water to Delevan NWR 

(10,455 AF of permanent purchased NOD 

Incremental Level 4 water (CorningThomes-Proberta WDs). (Included in Inc. 
234

Type Name Rate Frac MU Total Agency Fund Description

L4 Surface Water Conveyance in Benefit 

39,575).

Agreement Incremental Level 4 

Conveyance at NO Cost to 

RWSP

$0 1.00 0.0

0

$0 BOR CVPRF Inc L4 water delivered with no 

conveyance costs to RWSP. (2,500 AF 

surface water via Merced ID FERC license 

mitigation requirement.) (AF included in 

‘Inc L4 Water with No Conveyance Cost 

to RWSP’ Benefit section)

Agreement Henry Miller Reclamation 

District Contract 

#17WC205028 - IL4 Surface 

Water Conveyance

$18,000 1.00 0.0

6

$19,080 BOR CVPRF Convey surface water to Los Banos WA 

and Grassland Resource Conservation 

District. (AF included in 39,757 of Inc. L4 

Surface Water Conveyance in Benefit 

section).

Agreement PG&E Contract 

#R15PD00454 - IL4 

Groundwater Pumping 

(Power Costs)

$75,519 1.00 0.0

6

$80,050 BOR CVPRF Electrical power costs for pumping IL4 

groundwater from wells on Pixley NWR. 

(1000 AF included in Inc. L-4 Groundwater Pumped Benefit of 2,500).

Agreement Buena Vista Water Storage 

District Agreement 

#R10AC20683 - IL4 Surface 

Water Conveyance

$174,000 1.00 0.0

6

$184,440 BOR CVPRF Convey surface water to Kern NWR 

(1,706 AF of permanent purchased NOD 

Inc. Level 4 water via reallocation/transfer 

from NOD to SOD; and 5,600 AF via E. 

Bear Creek Unit groundwater/CVP 

exchange projects). (Included in Inc. L4 

Surface Water Conveyance in Benefit 

39,757).

Technical Support

Labor CDFW R-4 Was water 

quality monitoring

$291,738 .18 0.0

6

$52,512 BOR CVPRF Technical support labor involved for 

MP156/157 staff to provide water quality 

monitoring 

Labor Agreement and contract 

modifications

$108,123 .04 0.0

6

$4,325 BOR CVPRF MP3800 Contracts Division technical 

support to process agreement and 

contract modifications 
235

Type Name Rate Frac MU Total Agency Fund Description

Monitoring

Equipment or 

Materials

IL4 Water Quality 

Monitoring SOD WAs - 2 

LABS: SD Ag - BPA 

#R13PA20140; and WET -

BPA #R11PA20028

$21,194 1.00 0.0

6

$22,466 BOR CVPRF Costs for laboratory analysis of water 

samples and supplies for Inc. L4 

groundwater quality monitoring program 

related to CDFW SOD WAs 

Reimbursement Agreement.
236

Incremental Level 4 Water Purchases and L2 Exchanges

Purchase of Incremental Level 4 and Exchange of L2 Refuge Water

DCN: 20RWSP002

Classification: Improvement, Water Acquisition

Location: Refuges and Wildlife Areas

Funding Years: 2020 - 2022

Benefits Start Year: 2020

Priority: 5 - 'The RWSP's funding priorities are: 1) Labor & overhead (Administrative 

and Technical); 2) Conveyance of 100% Level 2 water; 3) Acquisition and 

conveyance of IL4; 4) Facilities construction – ongoing needs 

Partners: GWD, CDFW, FWS

Related Programs: No Data.

Authority

Provision Percentage

(d)(2) Refuge Acquisition IL4 100.0%

Metrics

Name Value Units Comment

d2 Refuge: Inc L4 Water Acquisition, 

including Replacement Water

0 acrefeet

Deliverables

Date Title

Oct. 2020 Incremental Level 4 Water

Narrative

Purchase surface and ground water from various sources and enter into uneven exchange 

agreements for refuge Level 2 to increase IL4 supplies.

Data Management

Water contract records are maintained in the Bureau of Reclamation’s Resources Management 

Division. Incremental Level 4 delivery and losses data is maintained in the Bureau of Reclamation’s 

Resources Management Division.
237

Risks

Risk Likelihood Impact

Water Not Available for Purchase 1 1

Cost Estimate

Year Fund Total BOR FWS

2020 CVPRF $8,572,000 $8,572,000 $0

2021 CVPRF $8,200,000 $8,200,000 $0

2022 CVPRF $8,200,000 $8,200,000 $0

Total Cost: $24,972,000
238

Internal Agency Resources Table

Type Name Rate Frac. MU Total Agency Fund Description

2020

Acquisition

Labor Water Quality 

Monitoring

$40,000 1.00 0.00 $40,000 BOR CVPRF Technical services provided by the 

Environmental Affairs Division to monitor the 

water quality of various sources of water 

acquired for refuges. 

Labor Refuge L2 Exchanges 

to Acquire IL4

$0 1.00 0.00 $0 BOR CVPRF Various L2 exchanges are anticipated that 

would result in additional IL4 water being 

made available. Costs to negotiate and 

administer agreements would be covered 

under admin costs - no additional costs are 

anticipated

Agreement Acquire IL4 Water $8,532,000 1.00 0.00 $8,532,000 BOR CVPRF Acquire surface and groundwater from 

various sources to meet IL4 supplies.

2021

Acquisition

Labor Water Quality 

Monitoring

$40,000 1.00 0.00 $40,000 BOR CVPRF Technical services provided by the 

Environmental Affairs Division to monitor the 

water quality of various sources of water 

acquired for refuges. 

Agreement Acquire IL4 Water $8,160,000 1.00 0.00 $8,160,000 BOR CVPRF Acquire water from various sources to be 

used to meet Inc. L4 supplies 

Labor Refuge L2 Exchanges 

to Acquire IL4

$0 1.00 0.00 $0 BOR Various L2 exchanges are anticipated that 

would result in additional IL4 water being 

made available. Costs to negotiate and 

administer agreements would be covered 

under admin costs - no additional costs are 

anticipated. 
239

Type Name Rate Frac. MU Total Agency Fund Description

2022

Acquisition

Labor Refuge L2 Exchanges 

to Acquire IL4

$0 1.00 0.00 $0 BOR CVPRF Various L2 exchanges are anticipated that 

would result in additional IL4 water being 

made available. Costs to negotiate and 

administer agreements would be covered 

under admin costs - no additional costs are 

anticipated.

Labor Water Quality 

Monitoring

$40,000 1.00 0.00 $40,000 BOR CVPRF Technical services provided by the 

Environmental Affairs Division to monitor the 

water quality of various sources of water 

acquired for refuges. 

Agreement Inc. Level 4 Water 

Purchases and L2 

Exchanges

$8,160,000 1.00 0.00 $8,160,000 BOR CVPRF Acquire surface and groundwater from 

various sources to be used to meet Inc. L4 

supplies
240

Level 2 Refuge Water Conveyance (FY2020)

Conveyance of surface water and groundwater pumping for refuges

DCN: 20RWSP003

Classification: Improvement, Refuge Surface

Location: Central Valley wide, 

Funding Years: 2019 - 2022

Benefits Start Year: 2020

Priority: 2 - Refuge Water Supply Program - Priority Ranking Numbers & Definitions:

1) Administration (RWSP staff and technical support);

2) Level 2 (L2) water conveyance and facilities construction;

3) Incremental Level 4 (IL4) Acquisitions and conveyance; and

4) Unfunded needs.

Partners: CDFW, FWS, GWD

Related Programs: No Data.

Authority

Provision Percentage

(d)(1) Refuge Conveyance L2 100.0%

Metrics

Name Value Units Comment

Conveyance: L2 Refuge Water 

Convey (annual)

330884 acrefeetL2 Surface Water Conveyance for WY2020

Conveyance: L2 Refuge Water 

Convey (annual)

49506 acrefeetL2 Water from Diverse Sources at no Cost to 

RWSP for WY2020

Conveyance: L2 Refuge Water 

Convey (annual)

16232 acrefeetL2 Groundwater Pumping for WY2020

Deliverables

Date Title

Mar. 2020 Level 2 Water Conveyance to CVPIA Refuges

Narrative

Conveyance of Level 2 (L2) refuge water supplies to CVPIA refuges. This includes CVP surface 

water and water from diverse sources such as groundwater, mitigation water, water rights water, 

riparian rights water, and accretion water. The conveyance budget for FY2020 includes some 

assumptions to reduce the potential for over-estimations. For example, instead of using full L2 

quantities for NOD conveyance cost estimates, an average of L2 deliveries for 2-3 recent years 

(excluding critically dry years) is used. Early in FY2020, the conveyance budget will be refined and 
241

recalculated. If the revised budget need is less than the allocated budget amount, the CVPIA 

Program Administrator and Refuge Water Supply Program (RWSP) team will be informed to allow 

for a determination where the unneeded funds can be used to benefit other RWSP activities or 

CVPIA Program needs.

The conveyance of surface water supplies requires conveyance contracts with a number of 

conveying entities. Due to the geographical location of the refuges, direct delivery of water to a 

refuge boundary from Reclamation conveyance facilities can only be achieved for two of the 19 

refuges. The remaining refuges receiving surface water deliveries require up to 3 conveying entities 

(including Reclamation facilities) for water to reach their boundaries. For the purpose of this 

charter, the primary conveyor represents the contracted conveyor conveying the initial diversion of 

refuge water supplies. In most cases, this water is then delivered to another conveying entity 

(secondary conveyor) with facilities in closer proximity to specific refuges. In some instances, the 

secondary conveyor completes the conveyance, delivering water to the refuge boundary. In other 

instances, a third conveying entity (tertiary conveyor) is necessary to complete refuge water 

conveyance due to the distances between certain refuges and available conveyance facilities. When a 

tertiary conveyor is utilized, the secondary conveyor moves refuge water into the tertiary conveyor’s 

system for final delivery to refuge boundaries. 

-- FY20 represents projected costs to convey full L2 water supplies to those CVPIA refuges with 

sufficient external conveyance capacity in Contract Water Year 2020 (March 1, 2020, thru February 

28, 2021).

-- FY21 represents projected costs to convey full L2 water supplies to those CVPIA refuges with 

sufficient external conveyance capacity in Contract Water Year 2021 (March 1, 2021, thru February 

28, 2022).

- FY22 represents projected costs to convey full L2 water supplies to those CVPIA refuges with 

sufficient external conveyance capacity in Contract Water Year 2022 (March 1, 2022, thru February 

28, 2023).

A factor of 3% increase was applied to all FY2020 conveyance estimates to arrive at an estimate for 

FY2021, repeating the process for FY2022 estimates, to meet the out-year planning estimates for the 

work plans, providing an adjustment to account for future rate increases. However, once each of 

those years moves up into the position of being the “next fiscal year” with an assigned Proposed 

President’s Budget, the Refuge Water Conveyance budget is reanalyzed, refined, and recalculated, 

incorporating upcoming-year rate estimates based on the then-prevailing rates for all conveyance 

contracts, applying the same process as described earlier above, again narrowing the budget closer to 

expected conditions.

There are no “fixed” conveyance costs for any of the 19 CVPIA refuges. Overall conveyance costs 

may vary according to hydrology; for example, in a critically dry year where refuges full L2 

allocations are reduced by 25%, there may be a reduction in L2 conveyance costs as a result of 

delivering fewer L2 supplies. All current conveyance agreements contain provisions allowing for 

rate increases or include a rate escalator. 
242

Data Management

Contract and agreement records are maintained in the Bureau of Reclamation’s Acquisitions 

Division and Resources Division. Delivery data is maintained on the Bureau of Reclamation’s 

compute network server. Flow data for Gray Lodge Wildlife Area surface water is available on the 

internet at: http://www.usbr.gov/mp/glwa/index.php

Risks

Risk Likelihood Impact

Unfavorable hydrology 1 2

Conveyance contractor default 1 3

Cost Estimate

Year Fund Total BOR FWS DFW

2020 CVPRF $14,757,159 $13,825,414 $931,745 $0

2020 SIK $170,000 $0 $0 $170,000

2021 CVPRF $14,429,772 $13,443,784 $985,988 $0

2021 SIK $145,000 $0 $0 $145,000

2022 CVPRF $14,717,853 $13,718,347 $999,506 $0

2022 SIK $145,000 $0 $0 $145,000

Total Cost: $44,364,784
243

Internal Agency Resources Table

Type Name Rate Frac. MU Total Agency Fund Description

2020

Implementation

Agreement Henry Miller Reclamation 

District Contract 

#17WC205028 - L2 

Surface Water Conveyance

$165,000 1.00 0.00 $165,000 BOR CVPRF Convey surface water to Los Banos WA 

and Grassland Resource Conservation 

District (AF included in (AF included in 

330,384 under Benefit section)

Agreement Henry Miller Reclamation 

District Agreement 

#11650-2-0013 (with FWS) 

- L2 Surface Water 

Conveyance

$742,822 1.00 0.00 $742,822 FWS CVPRF Convey surface water to San Luis and 

West Bear Creek Units of the San Luis 

NWR (AF included in 330,884 under 

Benefit section)

Agreement Biggs-West Gridley Water 

District Agreement 

#R10AC20559 - L2 Surface 

Water Conveyance

$0 1.00 0.00 $0 BOR CVPRF Actual funding need is $110,000 – will 

use existing funds on Agreement. 

Convey surface water to Gray Lodge 

WA (AF included in 330,884 under 

Benefit section)

In-Kind Equipment 

or Materials

Water District Conveyance 

Fees

$170,000 1.00 0.00 $170,000 DFW SIK District fees to convey water to primary 

and secondary lands within the Gray 

Lodge Wildlife Area.

Agreement Grassland Water District 

Contract #17WC205027 -

L2 Surface Water 

Conveyance

$450,000 1.00 0.00 $450,000 BOR CVPRF Convey surface water supplies to Los 

Banos WA; Salt Slough Unit of N. 

Grasslands WA; and Freitas and 

Kesterson Units of San Luis NWR (AF 

included in 330,884 under Benefit 

section)

Agreement Glenn-Colusa Irrigation 

District Agreement 

#R13AC20502 - L2 Surface 

Water Conveyance

$2,200,000 1.00 0.00 $2,200,000 BOR CVPRF Convey surface water to Sacramento, 

Colusa and Delevan NWRs (AF included 

in 330,884 under Benefit section)
244

Type Name Rate Frac. MU Total Agency Fund Description

Agreement Central California 

Irrigation District Contract 

#17WC205023 - L2 

Surface Water Conveyance

$1,125,000 1.00 0.00 $1,125,000 BOR CVPRF Convey surface water to China Island 

Unit of N. Grasslands WA; and to 

tertiary conveyor for Los Banos WA; 

Salt Slough Unit of N. Grasslands WA; 

Freitas & Kesterson Units of San Luis 

NWR; Grassland Resource Conservation 

District (AF included in 330,884 under 

Benefit section)

Agreement CA Dept. of Water 

Resources Agreement 

#12WC204346 - L2 

Surface Water Conveyance

$48,000 1.00 0.00 $48,000 BOR CVPRF Convey surface water to tertiary 

conveyor for Kern NWR (AF included in 

330,884 under Benefit section)

Agreement FWS Costs for 

Groundwater Pumping 

and Lift Pumping L2 Water 

(BOR-FWS Interagency 

'Split' Agreement)

$253,339 1.00 0.00 $188,923 FWS CVPRF 1) Groundwater pumping at Merced 

(4,952 AF--part of 16,232 in Benefit 

section); 2) temp lift pumps rental for 

fall @Sutter (AF included in 330,884 in 

Benefit); 3) lift pumping to elevate 

surface water at Colusa & Sutter 

(Triangle) reference boundaries (AF 

included in 330,884 under Benefit)

Agreement San Luis & Delta-Mendota 

Water Authority 

Agreement #80720X0354 

- L2 Surface Water 

Conveyance

$8,200,000 1.00 0.00 $8,200,000 BOR CVPRF Convey surface water to Volta & 

Mendota WAs; & to secondary & 

tertiary conveyors for Los Banos WA; 

China Is & Salt Sl Units of N. Grasslands 

WA; Freitas, Kesterson & E. Bear San 

Luis NWR; Kern NWR; & GRCD (AF 

included in 330,884 under Benefit 

section) 

Agreement Buena Vista Water Storage 

District Agreement 

#R10AC20683 - L2 Surface 

Water Conveyance

$180,000 1.00 0.00 $180,000 BOR CVPRF Convey surface water directly to Kern 

NWR (AF included in 330,884 under 

Benefit section)
245

Type Name Rate Frac. MU Total Agency Fund Description

Agreement Water from Diverse 

Sources at No Cost to 

RWSP

$0 1.00 0.00 $0 BOR CVPRF L2 surface water from diverse sources 

with NO conveyance/power cost to 

Refuge Program. Sutter 4,649 AF 

riparian rights; Gray Lodge 20,000 AF 

water rights; Los Banos 3,995 AF 

mitigation; Merced 8,548 AF mitigation 

via Merced ID (FERC license); GRCD 

10,000 groundwater; Volta 2314 AF 

accretion flows.

Agreement BOR Costs 

Groundwater/Lift Pumping 

L2 Water (CDFW Reimb

#s15WC204671 & 

16WC204795?; PG&E 

#R15PD00454

$1,157,861 1.00 0.00 $1,157,861 BOR CVPRF Total need=$1,457,861; $300,000 

covered with existing funds on 

Agreement. For L2 groundwater & lift 

pumping, including Project Use Energy. 

(Groundwater AF included in L2 

Groundwater Pumped Benefit 16,232) 

Refuges: Pixley NWR; Gray Lodge, 

Volta, Los Banos, & Mendota WAs; 

China Island, Salt Slough & E. Bear Cr. 

Unit

Technical Support

Labor Gray Lodge Wildlife Area 

water quality monitoring

$278,720 .25 0.00 $69,703 BOR CVPRF Labor involved for MP156/157 staff to 

provide water quality monitoring 

Labor Sutter NWR Pilot Project 

water quality monitoring

$270,982 .37 0.00 $100,187 BOR CVPRF Labor involved for MP156/157 staff to 

provide water quality monitoring 

Labor MP3800 Agreement and 

contract modifications

$76,003 .13 0.00 $12,920 BOR CVPRF Labor involved for staff to process 

agreement and contract modifications 

Labor NCAO conveyance 

agreement administration

$294,320 .06 0.00 $17,659 BOR CVPRF Administration of North-of-Delta 

refuge water conveyance agreements

Labor NCAO hydrologic 

technician Flow/ Pump 

meter management

$166,462 .11 0.00 $18,311 BOR CVPRF Collect delivery data from Gray Lodge 

meters; perform maintenance on flow 

meters and groundwater pump meters
246

Type Name Rate Frac. MU Total Agency Fund Description

Monitoring

Agreement Sutter NWR/RD-1004 Pilot 

Project Water Quality 

Monitoring

$75,301 1.00 0.00 $75,301 BOR CVPRF Contract laboratory water sampling 

analysis costs and supply costs for 

Sutter/RD1004 L2 Conveyance Pilot 

Project: Convey CVP water to Sutter 

NWR via Sacramento River thru RD1004, then down Butte Creek to E. 

Borrow Ditch to Sutter NWR. Monitor 

water quality at point of acceptance, 

and points of delivery.

Agreement Water Quality Monitoring 

- Gray Lodge WA - 2 LABS: 

APPL - BPA #R11PA20027; 

Basic - BPA #R11PA20029

$5,472 1.00 0.00 $5,472 BOR CVPRF Contract laboratory water sampling 

analysis costs and supply costs for Gray 

Lodge Wildlife Area water quality 

monitoring program for both 

groundwater and surface water 

supplies. 

2021

Implementation

Agreement Grassland Water District 

Contract #17WC205027 -

L2 Surface Water 

Conveyance

$421,000 1.00 0.03 $433,630 BOR CVPRF Convey surface water supplies to Los 

Banos WA; Salt Slough Unit of N. 

Grasslands WA; and Freitas and 

Kesterson Units of San Luis NWR (AF 

included in 337,222 under Benefit 

section)

Agreement Buena Vista Water Storage 

District Agreement 

#R10AC20683 - L2 Surface 

Water Conveyance

$273,000 1.00 0.03 $281,190 BOR CVPRF Convey surface water directly to Kern 

NWR (AF included in 337,222 under 

Benefit section)

Agreement BOR Costs 

Groundwater/Lift Pumping 

L2 Water (CDFW Reimb 

#s15WC204671 & 

$1,028,496 1.00 0.03 $1,059,351 BOR CVPRF Costs for pumping L2 groundwater & 

lift pumping required to elevate surface 

water supplies @ refuge boundaries 

including Project Use Energy 

(Groundwater AF included in L2 
247

Type Name Rate Frac. MU Total Agency Fund Description

16WC204795; PG&E 

#R15PD00454

Groundwater Pumped Benefit 13,686) 

Refuges: Pixley NWR; Gray Lodge, 

Volta, Los Banos, & Mendota; China Is 

& Salt Slough Units; E. Bear Cr. Unit

Agreement FWS Costs for 

Groundwater Pumping 

and Lift Pumping L2 Water 

(BOR-FWS Interagency 

'Split' Agreement)

$253,339 1.00 0.03 $260,939 FWS CVPRF 1) Groundwater pumping at Merced 

(4,952 AF--part of 13,686 in Benefit 

section); 2) temp lift pumps rental for 

fall @ Sutter (AF included in 337,222 in 

Benefit);3 ) lift pumping to elevate 

surface water at Colusa & Sutter 

(Triangle) reference boundaries (AF 

included in 335,222 under Benefit)

Agreement Biggs-West Gridley Water 

District Agreement 

#R10AC20559 - L2 Surface 

Water Conveyance

$110,000 1.00 0.03 $113,300 BOR CVPRF Convey surface water to Gray Lodge 

WA (AF included in 337,222 under 

Benefit section)

Agreement Central California 

Irrigation District Contract 

#17WC205023 - L2 

Surface Water Conveyance

$1,267,000 1.00 0.03 $1,305,010 BOR CVPRF Convey surface water to China Island 

Unit of N. Grasslands WA; and to 

tertiary conveyor for Los Banos WA; 

Salt Slough Unit of N. Grasslands WA; 

Freitas & Kesterson Units of San Luis 

NWR; Grassland Resource Conservation 

District (AF included in 337,222 under 

Benefit section)

Agreement Henry Miller Reclamation 

District Agreement 

#11650-2-0013 (with FWS) 

- L2 Surface Water 

Conveyance

$703,931 1.00 0.03 $725,049 FWS CVPRF Convey surface water to San Luis and 

West Bear Creek Units of the San Luis 

NWR (AF included in 337,222 under 

Benefit section)

Agreement CA Dept. of Water 

Resources Agreement 

#12WC204346 - L2 

Surface Water Conveyance

$46,000 1.00 0.03 $47,380 BOR CVPRF Convey surface water to tertiary 

conveyor for Kern NWR (AF included in 

337,222 under Benefit section)
248

Type Name Rate Frac. MU Total Agency Fund Description

In-Kind Equipment 

or Materials

Water District Conveyance 

Fees

$145,000 1.00 0.00 $145,000 DFW SIK District fees to convey water to primary 

and secondary lands within the Gray 

Lodge Wildlife Area.

Agreement San Luis Delta-Mendota 

Water Authority 

Agreement #80720X0354 

- L2 Surface Water 

Conveyance

$7,320,000 1.00 0.03 $7,539,600 BOR CVPRF Convey surface water to Volta & 

Mendota WAs; and to secondary & 

tertiary conveyors for Los Banos WA; 

China Island and Salt Slough Units of N. 

Grasslands WA; Freitas & Kesterson 

Units of San Luis NWR; Kern NWR; & 

Grassland Resource Conservation 

District (AF included in 337,222 under 

Benefit section)

Agreement Water from Diverse 

Sources at No Cost to 

RWSP

$0 1.00 0.00 $0 BOR CVPRF L-2 surface water from diverse sources 

with NO conveyance/ power cost to 

Refuge Program. Sutter 12,423 AF 

riparian rights; Gray Lodge 18,800 AF 

water rights; Los Banos 3,995 AF 

mitigation; Merced 8,548 AF mitigation 

via Merced ID (FERC license); GRCD 

4,407 groundwater; Volta 2314 AF 

accretion flows.

Agreement Glenn-Colusa Irrigation 

District Agreement 

#R13AC20502 - L2 Surface 

Water Conveyance

$2,125,000 1.00 0.03 $2,188,750 BOR CVPRF Convey surface water to Sacramento, 

Colusa and Delevan NWRs (AF included 

in 337,222 under Benefit section)

Agreement Henry Miller Reclamation 

District Contract 

#17WC205028 - L2 

Surface Water Conveyance

$236,000 1.00 0.03 $243,080 BOR CVPRF Convey surface water to Los Banos WA 

and Grassland Resource Conservation 

District (AF included in 337,222 under 

Benefit section)

Technical Support

Labor Gray Lodge Wildlife Area 

water quality monitoring

$287,082 .25 0.03 $71,794 BOR CVPRF Labor involved for MP156/157 staff to 

provide water quality monitoring 
249

Type Name Rate Frac. MU Total Agency Fund Description

Labor Sutter NWR Pilot Project 

water quality monitoring

$279,111 .37 0.03 $103,192 BOR CVPRF Labor involved for MP156/157 staff to 

provide water quality monitoring 

Labor MP3800 Agreement and 

contract modifications

$78,283 .13 0.03 $13,307 BOR CVPRF Labor involved for staff to process 

agreement and contract modifications 

Labor NCAO conveyance 

agreement administration

$303,150 .06 0.03 $18,188 BOR CVPRF Administration of North-of-Delta 

refuge water conveyance agreements

Labor NCAO hydrologic 

technician Flow/ Pump 

meter management

$171,456 .11 0.03 $18,860 BOR CVPRF Collect delivery data from Gray Lodge 

meters; perform maintenance on flow 

meters and groundwater pump meters

Monitoring

Labor Bear Creek Water Loss 

Study

$0 1.00 0.00 $0 BOR CVPRF Collect and evaluate flow data to 

determine conveyance water losses to 

the East Bear Creek Unit of the San Luis 

NWR Complex. Costs included in 

‘RWSP Technical Support’ charter for 

labor.

Agreement Water Quality Monitoring 

- Gray Lodge WA - 2 LABS: 

APPL - BPA #R11PA20027; 

Basic - BPA #R11PA20029

$6,944 1.00 0.03 $7,152 BOR CVPRF Contract laboratory water sampling 

analysis costs and supply costs for Gray 

Lodge Wildlife Area water quality 

monitoring program for both 

groundwater and surface water 

supplies. 

2022

Implementation

Agreement Grassland Water District 

Contract #17WC205027 -

L2 Surface Water 

Conveyance

$421,000 1.00 0.06 $446,260 BOR CVPRF Convey surface water supplies to Los 

Banos WA; Salt Slough Unit of N. 

Grasslands WA; and Freitas and 

Kesterson Units of San Luis NWR (AF 

included in 337,222 under Benefit 

section)

Agreement Water from Diverse 

Sources at No Cost to 

RWSP

$0 1.00 0.00 $0 BOR CVPRF L-2 surface water from diverse sources 

with NO conveyance/ power cost to 

Refuge Program. Sutter 12,423 AF 
250

Type Name Rate Frac. MU Total Agency Fund Description

riparian rights; Gray Lodge 18,800 AF 

water rights; Los Banos 3,995 AF 

mitigation; Merced 8,548 AF mitigation 

via Merced ID (FERC license); GRCD 

4,407 groundwater; Volta 2314 AF 

accretion flows.

Agreement Henry Miller Reclamation 

District Contract 

#17WC205023 - L2 

Surface Water Conveyance

$236,000 1.00 0.06 $250,160 BOR CVPRF Convey surface water to Los Banos WA 

and Grassland Resource Conservation 

District (AF included in 337,222 under 

Benefit section)

Agreement Central California 

Irrigation District Contract 

#17WC205023 - L2 

Surface Water Conveyance

$1,267,000 1.00 0.06 $1,343,020 BOR CVPRF Convey surface water to China Island 

Unit of N. Grasslands WA; and to 

tertiary conveyor for Los Banos WA; 

Salt Slough Unit of N. Grasslands WA; 

Freitas & Kesterson Units of San Luis 

NWR; Grassland Resource Conservation 

District (AF included in 337,222 under 

Benefit section)

Agreement Biggs-West Gridley Water 

District Agreement 

#R10AC20559 - L2 Surface 

Water Conveyance

$110,000 1.00 0.06 $116,600 BOR CVPRF Convey surface water to Gray Lodge 

WA (AF included in 337,222 under 

Benefit section)

Agreement Glenn-Colusa Irrigation 

District Agreement 

#R13AC20502 - L2 Surface 

Water Conveyance

$2,125,000 1.00 0.06 $2,252,500 BOR CVPRF Convey surface water to Sacramento, 

Colusa and Delevan NWRs (AF included 

in 337,222 under Benefit section)

Agreement FWS Costs for 

Groundwater Pumping 

and Lift Pumping L2 Water 

(BOR-FWS Interagency 

'Split' Agreement)

$253,339 1.00 0.00 $253,339 FWS CVPRF 1) Groundwater pumping at Merced 

(4,952 AF- part of 13,686 in Benefit 

section); 2) temp lift pumps rental for 

fall @ Sutter (AF included in 337,222 in 

Benefit); 3) lift pumping to elevate 

surface water at Colusa & Sutter 
251

Type Name Rate Frac. MU Total Agency Fund Description

(Triangle) reference boundaries (AF

included in 337,222 under Benefit)

Agreement San Luis Delta-Mendota 

Water Authority 

Agreement #80720X0354 

- L2 Surface Water 

Conveyance

$7,320,000 1.00 0.06 $7,759,200 BOR CVPRF Convey surface water to Volta & 

Mendota WAs; and to secondary & 

tertiary conveyors for Los Banos WA; 

China Island and Salt Slough Units of N. 

Grasslands WA; Freitas & Kesterson 

Units of San Luis NWR; Kern NWR; & 

Grassland Resource Conservation 

District (AF included in 337,222 under 

Benefit section)

Agreement CA Dept. of Water 

Resources Agreement 

#12WC204346 - L2 

Surface Water Conveyance

$46,000 1.00 0.06 $48,760 BOR CVPRF Convey surface water to tertiary 

conveyor for Kern NWR (AF included in 

337,222 under Benefit section)

Agreement Buena Vista Water Storage 

District Agreement 

#R10AC20683 - L2 Surface 

Water Conveyance

$175,000 1.00 0.06 $185,500 BOR CVPRF Convey surface water directly to Kern 

NWR (AF included in 357,366 under 

Benefit section)

Agreement Henry Miller Reclamation 

District Agreement 

#11650-2-0013 (with FWS) 

- L2 Surface Water 

Conveyance

$703,931 1.00 0.06 $746,167 FWS CVPRF Convey surface water to San Luis and 

West Bear Creek Units of the San Luis 

NWR (AF included in 337,222 under 

Benefit section)

In-Kind Equipment 

or Materials

Water District Conveyance 

Fees

$145,000 1.00 0.00 $145,000 DFW SIK District fees to convey water to primary 

and secondary lands within the Gray 

Lodge Wildlife Area.

Agreement BOR Costs 

Groundwater/Lift Pumping 

L2 Water (CDFW Reimb 

#s15WC204671 & 

16WC204795?; PG&E 

#R15PD00454

$1,028,496 1.00 0.06 $1,090,206 BOR CVPRF Costs for pumping L2 groundwater & 

lift pumping required to elevate surface 

water supplies @ refuge boundaries 

incl Project Use energy. (Groundwater 

AF incl in L2 Groundwater Pumped 

Benefit 13,686) Refuges: Pixley NWR; 
252

Type Name Rate Frac. MU Total Agency Fund Description

Gray Lodge, Volta, Los Banos, & 

Mendota; China Island & Salt Slough 

Units; E. Bear Creek

Technical Support

Labor Gray Lodge Wildlife Area 

water quality monitoring

$295,443 .25 0.06 $69,703 BOR CVPRF Labor involved for MP156/157 staff to 

provide water quality monitoring 

Labor Sutter NWR Pilot Project 

water quality monitoring

$287,240 .37 0.06 $100,187 BOR CVPRF Labor involved for MP156/157 staff to 

provide water quality monitoring 

Labor MP3800 Agreement and 

contract modifications

$80,563 .13 0.06 $12,920 BOR CVPRF Labor involved for staff to process 

agreement and contract modifications 

Labor NCAO conveyance 

agreement administration

$311,979 .063 0.06 $17,659 BOR CVPRF Administration of North-of-Delta 

refuge water conveyance agreements

Labor NCAO hydrologic 

technician Flow/ Pump 

meter management

$176,447 .11 0.06 $18,311 BOR CVPRF Collect delivery data from Gray Lodge 

meters; perform maintenance on flow 

meters and groundwater pump meters

Monitoring

Agreement Water Quality Monitoring 

- Gray Lodge WA - 2 LABS: 

APPL - BPA #R11PA20027; 

Basic - BPA #R11PA20029

$6,944 1.00 0.06 $7,361 BOR CVPRF Contract laboratory water sampling 

analysis costs and supply costs for Gray 

Lodge Wildlife Area water quality 

monitoring program for both 

groundwater and surface water 

supplies. 

Labor Bear Creek Water Loss 

Study

$0 1.00 0.00 $0 BOR CVPRF Collect and evaluate flow data to 

determine conveyance water losses to 

the East Bear Creek Unit of the San Luis 

NWR Complex. Costs included in 

'RWSP Technical Support' charter for 

labor.
253

Refuge Construction - Biggs-West Gridley/Gray Lodge WA Project

Project implementation or contract and construction management service

DCN: 20RWSP004

Classification: Improvement, Refuge Facility

Location: Sutter Buttes Region, North of Delta Refuges and Wildlife Areas

Funding Years: 2017 - 2021

Benefits Start Year: 2021

Priority: High

Partners: Ducks Unlimited, FWS, Gray Lodge, BWDWD, CDFW

Related Programs: CVPIA b2

Authority

Provision Percentage

(d)(5)-(1) Refuge Facility L2 80.0%

(d)(5)-(2) Refuge Facility IL4 20.0%

Metrics

Name Value Units Comment

Full Level 4 Delivery Capacity 44000 acrefeetAmount of water required for optimum 

management of wetlands, subject to water 

supply availability.

Deliverables

Date Title

Oct. 2018 FY19 Service Agreement (MP-410 and MPCO)

Oct. 2019 FY20 Service Agreement (MP-410 and MPCO)

Oct. 2020 FY21 Service Agreement (MP-410 and MPCO)

May. 2021 Construction Completion

Narrative

This charter is for Reclamation’s Mid-Pacific Construction Office (MPCO) construction contract 

and management support services to be provided to Ducks Unlimited for the implementation of the 

Gray Lodge Wildlife Area Water Supply Project (formally known as the Biggs-West Gridley Water 

District (BWGWD) Conveyance Improvement Project). The project includes improvements to the 

BWGWD water conveyance system to increase system capacity and accommodate deliveries of full 

Level 4 water supplies to the Gray Lodge WA, a CVPIA refuge. This Project builds upon previous 

phases of BWGWD conveyance improvements completed between 2013-15 and funded by 

Reclamation.
254

The resulting MPCO Service Agreement will be for contract management and construction 

management services to monitor the project construction activities. MPCO personnel will be on site 

to help coordinate construction work, verify that work is constructed per the design and 

specifications, monitor schedules and budgets, attend weekly project management meetings, provide 

construction/engineering support as needed, and prepare written daily and weekly construction 

update reports. BWGWD was awarded a grant from the California Natural Resources Agency 

(CNRA) to implement the construction Project. BWGWD is working with Ducks Unlimited, a 

RWSP NGO partner, to perform the construction work. MPCO will be supporting Ducks 

Unlimited who is the construction contract administrator for this project. The total CNRA (state) 

contribution to this project is $52,458,449.

Data Management

Project notes, data (daily updates and weekly reports) and reports will be maintained by 

Reclamation’s Construction Office (MPCO) and Reclamation’s Resources Management Division, 

Program Management Branch (MP-410).

Risks

Risk Likelihood Impact

Cost estimates and budget 1 2

Lack of Construction Office resources/expertise 1 2

Cost Estimate

Year Fund Total BOR SIK

2013 CVPRF $29,438,990 29,438,990 $0

2017 State Prop 1 $52,458,449 $0 $52,458,449

2018 CVPRF $29,420 $29,420 $0

2019 CVPRF $135,785 $135,785 $0

2020 CVPRF $945,490 $945,490 $0

Total Cost: $83,008,134
255

Internal Agency Resources Table

Type Name Rate Frac. MU Total Agency Fund Description

2018

Construction

Agreement Service 

Agreement

$29,420 0.00 0.00 $29,420 BOR CVPRF Service agreement with MPCO to provide 

technical support MP-410 and DU for Gray 

Lodge Wildlife Water Supply Prjec.

2019

Construction

Agreement Service 

Agreement

$400,000 1.00 0.00 $135,785 BOR CVPRF Contract management and on-site 

construction management services in FY19. 

State cost share for construction under 

CNRA grant is $52,458,449.

2020

Construction

Agreement Service 

Agreement

$400,000 1.00 0.00 $945,490 BOR CVPRF Contract management and on-site 

construction management services in FY20.
256

Refuge Construction - East Bear Creek Pump Station 

Modifications Project

Service agreement for O&M support services 

DCN: 20RWSP005

Classification: Improvement, Refuge Facility

Location: San Luis NWR Complex, South of Delta Refuges and Wildlife Areas

Funding Years: 2019 - 2021

Benefits Start Year: 2020

Priority: High

Partners: FWS

Authority

Provision Percentage

(d)(5)-(1) Refuge Facility L2 67.0%

(d)(5)-(2) Refuge Facility IL4 33.0%

Metrics

Name Value Units Comment

Full Level 4 water delivery 

capacity.

13290 acrefeetAmount of water required for optimum wetland 

management, subject to water supply 

availability.

Deliverables

Date Title

Oct. 2018 Service Agreement - FY19 (MP-410 and Tracey Office)

Feb. 2019 A/E design contract executed

Sep. 2019 A/E design contract deliverables completed/ being modifications

Oct. 2019 Service Agreement - FY20 (MP-410 and Tracey Office)

Narrative

The East Bear Creek Pump Station is the only facility available to divert water from Bear Creek for 

this San Luis Wildlife Refuge East Bear Creek Unit’s wetlands. Therefore, it is critical to keep the 

facility fully operational throughout the year, addressing any electrical and mechanical issues quickly. 

Since the completion of the pump station in 2009, it has been plagued by mechanical and electrical 

issues. Funding is needed to:
257

1. Enter into a service agreement with Reclamation's Tracey Office to provide O&M (electrical 

and mechanical) services for the East Bear Creek pump station. 

2. Enter into an A/E contract with a design firm to help assess and prioritize needed design 

and operational changes to the pump station to minimize unscheduled pump shutdowns.

3. Purchase materials for implementation of identified design and operational modifications to 

improve pump station performance (e.g., new valves, controls, electronics, etc.).

4. Enter into a service agreement with Reclamation’s Engineering and Design Division (MP200) to provide QA/QC technical review support of design and operational modifications.

Data Management

Data and reports will be maintained within Reclamation's Resources Management Division, Program 

Management Branch (MP-410).

Risks

Risk Likelihood Impact

Pump Plant failure - inability to pump water 2 2

Cost Estimate

Year Fund Total BOR FWS

2019 CVPRF $024 $0 $0

2020 CVPRF $1,200,000 $1,200,000 $0

2021 CVPRF $250,000 $250,000 $0

2022 CVPRF $100,000 $100,000 $0

Total Cost: $1,550,000

24 Contract was not executed in 2019, scheduled to be executed in 2020.
258

Internal Agency Resources Table

Type Name Rate Frack. MU Total Agency Fund Description

2020

Construction

Agreement Contract for 

Services

$450,000 1.00 0.00 $450,000 BOR CVPRF A/E contract with an engineering design firm 

to: (1) assess, identify and prioritize EBC 

pump plan operational and design issues 

and (2) modify designs/operations to 

address identified issues.

Agreement Service 

Agreement

$150,000 1.00 0.00 $150,000 BOR CVPRF FY20 Service Agreement with Tracey Office 

to provide emergency call out repairs and 

O&M support to the refuge managers. 

Agreement Service 

Agreement

$500,000 1.00 0.00 $500,000 BOR CVPRF FY20 Service Agreement with MP-200 for 

QA/QC technical review support of design 

and operational modifications. 

Agreement Supplies and 

Materials

$100,000 1.00 0.00 $100,000 BOR CVPRF For supplies/materials needed to implement 

designs and operations modifications

2021

Construction

Agreement Service 

Agreements

$150,000 1.00 0.00 $150,000 BOR CVPRF FY21 Service Agreement with Tracey Office 

to provide emergency call out repairs and 

O&M support to the refuge managers.

Agreement Supplies and 

Materials

$100,000 1.00 0.00 $100,000 BOR CVPRF For supplies/materials needed to implement 

designs/operations modifications.

2022

Construction

Agreement Service 

Agreement

$100,000 1.00 0.00 $100,000 BOR CVPRF FY22 Service Agreement with Tracey Office 

to provide emergency call out repairs and 

O&M support to the refuge managers. 
259

Refuge Construction - Sutter NWR Lift Station Project

Sutter NWR Lift Station Construction Support Services

DCN: 20RWSP006

Classification: Improvement, Refuge Facility

Location: Sutter Flood Control Bypass, North of Delta Refuges and Wildlife Areas

Funding Years: 2017 - 2020

Benefits Start Year: 2020

Priority: High

Partners: Ducks Unlimited, FWS, CDFW, CDWR

Related Programs: CVPIA b2

Authority

Provision Percentage

(d)(5)-(1) Refuge Facility L2 78.0%

(d)(5)-(2) Refuge Facility IL4 22.0%

Metrics

Name Value Units Comment

Full Level 4 water delivery 

capacity.

30000 acrefeetAmount of water required for optimum 

management of wetlands, subject to water supply 

availability.

Deliverables

Date Title

Oct. 2018 FY19 Service Agreement (MP410 and MPCO)

Oct. 2019 FY20 Service Agreement (MP410 and MPCO)

May. 2020 Construction Completion

Narrative

The Sutter NWR Lift Station Project is identified as part of the preferred alternative in the Sutter 

NWR Conveyance Study (Study), which was completed January 2015. The Lift Station is being 

designed with the capacity to provide the Refuge's full Level 4 water supply (30,000 AF) and will be 

a key component for long-term conveyance solutions identified in the Study. Project design, 

environmental compliance, and permitting are expected to be completed in late fall 2018. The Lift 

Station will be equipped with state-of-the-art cylindrical fish screens. Project construction is 

expected to start in summer 2019, however, actual start date is subject to environmental compliance 

and permitting activities being complete. Ducks Unlimited, a RWSP NGO partner, was awarded a 

grant from the California Natural Resources Agency (CNRA) to implement the construction 

Project. The total CNRA (state) contribution to this project is $5,927,167.
260

Reclamation has committed to providing construction contract and management services to Ducks 

Unlimited for project implementation. These services will be provided by Reclamation's Mid-Pacific 

Construction Office (MPCO) in Willows, CA. MP-410 will enter into annual service agreements 

with MPCO for these support services. 

Reclamation has also committed to providing continued engineering design support during bidding 

and construction of the project. These services will be provided by Reclamation’s Mid-Pacific design 

division (MP-200) as Engineer of Record. MP-410 will enter into annual service agreements with 

MP-200 for these support services. 

Finally, Reclamation has committed to reimbursing Ducks Unlimited for Project implementation 

expenses not reimbursable under the CNRA grant. This will be reimbursed under a Federal 

Financial Assistance agreement between Reclamation and Ducks Unlimited (funds for this 

agreement are expected to be obligated in FY18).

Data Management

Project information will be maintained within Reclamation's Resources Management Division, 

Program Management Branch (MP-410).

Risks

Risk Likelihood Impact

Lack of Construction Office resources/expertise 1 2

Cost estimate and budget 1 2

Cost Estimate

Year Fund Total BOR SIK

2017 State Prop 1 $5,927,167 $0 $5,927,167

2017 CVPRF $396,456 $396,456 $0

2018 CVPRF $341,850 $341,850 $0

2019 CVPRF $599,875 $599,875 $0

2020 CVPRF $519,565 $519,565 $0

Total Cost: $7,784,913
261

Internal Agency Resources Table

Type Name Rate Frac. MU Total Agency Fund Description

2017

Construction

Agreement Service 

Agreement

$1,500 1.00 0.00 $1,500 BOR CVPRF Service agreement with Reclamation's 

Construction Office in Willows, CA for 

contract management and construction 

management services in FY17. State cost 

share for construction under CNRA grant is 

$5,927,167.

Agreement Service 

Agreement

$394,956 1.00 0.00 $394,956 BOR CVPRF Service agreement with Reclamation's MP200 for engineering and design support 

services in FY17.

2018

Construction

Agreement Service 

Agreement

$29,420 1.00 0.00 $41,850 BOR CVPRF Service agreement with Reclamation's 

Construction Office in Willows, CA for 

contract management and construction 

management services in FY18. State cost 

share for construction under CNRA grant is 

$5,927,167.

Agreement Service 

Agreement

$300,000 1.00 0.00 $300,000 BOR CVPRF Service agreement with Reclamation's MP200 for engineering and design support 

services in FY18.

2019

Construction

Agreement Service 

Agreement

$135,785 1.00 0.00 $16,875 BOR CVPRF Service agreement with Reclamation's 

Construction Office in Willows, CA for 

contract management and construction 

management services in FY19. State cost 

share for construction under CNRA grant is 

$5,927,167.
262

Type Name Rate Frac. MU Total Agency Fund Description

Agreement Service 

Agreement

$418,000 1.00 0.00 $583,000 BOR CVPRF Service agreement with Reclamation's MP200 for engineering and design support 

services in FY19.

2020

Construction

Agreement Service 

Agreement

$945,490 1.00 0.00 $373,565 BOR CVPRF Service agreement with Reclamation's 

Construction Office in Willows, CA for 

contract management and construction 

management services in FY20.

Agreement Service 

Agreement

$146,000 1.00 0.00 $146,000 BOR CVPRF Service agreement with Reclamation's MP200 for engineering and design support 

services in FY20.
263

2020 Annual Work Plan Public Draft

Independent Programs Charters

Central Valley Project Improvement Act

Title XXXIV of Public Law 102-575
264

CVP Restoration Fund Trinity River Restoration Program (TRRP) 

Channel Restoration Projects FY20

Implementation of a river restoration project (Dutch Creek) using CVPIA funding.

DCN: 20INDP001

Classification: Improvement, Habitat Restoration

Location: Trinity River, Klamath Basin, Northern California

Funding Years: 2019 - 2020

Benefits Start Year: 2019

Priority: 1 - 2000 Record of Decision

Partners: BLM, CDFW, DWR, Hoopa Tribe, NMFS, USFS, Yurok Tribe

Related Programs: No Data.

Authority

Provision Percentage

(b)(21) Trinity River Restoration Program 100.0%

Metrics

Name Value Units Comment

Change in presmolt habitat 

area at winter flow (1,200 cfs)

37 N/A Units = Weighted usable area. Underestimated 

due to omission of cover from habitat 

estimate.

Split flow side channel 2 miles New channel edge length created

Functional Riparian Floodplain 0 acres 6.2 acres - Database glitch prevents entry. 

Lowering and planting of high mine sediment 

terrace

Large Wood Jam Habitat 

Structures

3 number of 

actions

Geomorphic wood jams. Dozens of habitat 

wood placements as well.

Change in presmolt habitat 

area at baseflow (@450cfs)

15 N/A Units = Weighted usable area. Underestimated 

due to omission of cover from habitat estimate

Deliverables

See Trinity River Restoration Program Annual Progress Report.

Narrative

The Dutch Creek channel rehabilitation project is situated at the top end of the Junction City Valley 

reach of the Trinity River. This is the broadest valley in the restoration reach of the Trinity and is 

where it has the highest potential to display the attributes of an alluvial river. However, it also was 

the location of some of the most intense hydraulic mining (followed by dredge mining) in California. 

The combination of mine-derived sedimentation compounded by flow regulation due to the TRD 

have resulted in dramatic channel simplification. The Dutch Creek project area in particular consists 
265

of a straight, nearly featureless channel with a wedge of sediment occupying the valley where a 

functional floodplain should sit. The project seeks to accomplish the goals of increasing the 

availability of anadromous fish habitat above winter base flow for all life stages, increase available 

floodplain and favorable conditions for riparian vegetation, increase wetland habitat off-channel 

salmonid rearing habitat, and increase the geomorphic complexity of the river in this reach. It should 

be noted that this project was included in our proposal for FY19, but due to permitting delays 

another project was selected for FY19 funding (Chapman Ranch Phase A); Dutch Creek Channel 

Rehabilitation has moved to FY20.

Data Management

Information will be retained in the TRRP Office.

Risks

No Data.

Cost Estimate

Year Fund Total BOR FWS

2020 CVPRF $1,500,000 $1,500,000 $0

2021 CVPRF $1,500,000 $1,500,000 $0

2022 CVPRF $1,500,000 $1,500,000 $0

2023 CVPRF $1,500,000 $1,500,000 $0

2024 CVPRF $1,500,000 $1,500,000 $0

2025 CVPRF $1,500,000 $1,500,000 $0

Total Cost: $9,000,000
266

Internal Agency Resources Table

Type Name Rate Frac. MU Total Agency Fund Description

2020

Implementation

Agreement Channel Construction 

Funding

$1,500,000 1.00 0.00 $1,500,000 BOR CVPRF Environmental site study and 

construction.

2021

Implementation

Agreement Channel Construction 

Funding

$1,500,000 1.00 0.00 $1,500,000 BOR CVPRF Environmental site study and 

construction.

2022

Implementation

Agreement Channel Construction 

Funding

$1,500,000 1.00 0.00 $1,500,000 BOR CVPRF Environmental site study and 

construction.

2023

Implementation

Agreement Channel Construction 

Funding

$1,500,000 1.00 0.00 $1,500,000 BOR CVPRF Environmental site study and 

construction.

2024

Implementation

Agreement Channel Construction 

Funding

$1,500,000 1.00 0.00 $1,500,000 BOR CVPRF Environmental site study and 

construction.

2025

Implementation

Agreement Channel Construction 

Funding

$1,500,000 1.00 0.00 $1,500,000 BOR CVPRF Environmental site study and 

construction.
267

WRR Funding of Trinity River Restoration Program (TRRP) Record 

Of Decision (ROD) Restoration Actions

Implementing the Record of Decision for the Trinity River Restoration Program including flows, 

gravel, monitoring, watershed restoration work, and related administration.

DCN: 20INDP002

Classification: Improvement, Water Operations

Location: Trinity River, Trinity County, northern California

Funding Years: 2020

Benefits Start Year: 2020

Priority: 1 - 2000 Record of Decision

Partners: Yurok Tribe, Hoopa Valley Tribe, CDFW, DWR, USFWS, USFS, NMFS, 

Trinity County

Related Programs: No Data.

Authority

Provision Percentage

(b)(1) 100.0%

Metrics

No Data.

Deliverables

No Data.

Narrative

The Trinity River Restoration Program funds a comprehensive internal and external program of 

work. The following list encompasses the scope of the TRRP funded by WRR under CVPIA (b)(23) 

authority.

TRRP Office Operations and Support Tasks - Includes building lease, fleet vehicles, Annual Report 

editing (TSC), Meeting notetaker contract.

TRRP Admin Personnel - Secretary, Grants specialist, Indian Self Determination Specialist

TMC - This task funds Hoopa Valley Tribe and the Yurok Tribe participation in the Trinity 

Management Council (TMC), the decision-making body of the TRRP.

Technical Assistance - Technical work group participation, hydrograph development, policy review, 

TRRP Refinements participation
268

Implementation - On the ground activities such as habitat restoration, gravel augmentation, and 

watershed restoration. Charter using (b)(1) authority is strictly for on the ground activities. This 

Charter using (b)(23) authority includes administrative costs associated with implementation.

Implementation Personnel - Implementation Branch Chief, engineer, outreach coordinator, civil 

engineering technicians (2), natural resource specialist

Miscellaneous - Contract for improvement to property in floodway; Temporary access agreements 

for restoration projects

Planning - Three contracts: NEPA support, Biological Assessment Development, Geophysical 

support services

Design & Support Services - Development and review of restoration designs

Construction (Non (b)(1)) - This Charter using (b)(23) authority includes administrative costs 

associated with construction related to implementation.

Watershed Implementation Grants - Grant(s) for tributary restoration work to government and 

NGO applicants

Science - Science Branch Chief, data steward, physical scientists (2), natural resource specialist

Science Program Support - Salary for program Riparian Ecologist employed on behalf of the Hoopa 

Valley Tribe

Status & Trend Monitoring

1. Redd Distribution

2. Outmigrant monitoring

3. Gravel Implementation Monitoring

4. Stream Gaging

5. Chinook CWT

6. Chinook Run Size Estimation

7. Tribal Harvest Monitoring

8. Fall Run Scale Age

9. Sport Harvest/Trinity Creel Survey

Effectiveness Monitoring

1. Flow Management Science - Targeted science solicitation for proposals addressing questions 

related to restoration flow optimization

2. Channel Rehab Effectiveness Monitoring - Field surveys and re-modeling of restoration sites 

to assess performance over time

Hatchery

1. Coded Wire Tag Purchase - Purchase of tags for cohort reconstruction

2. Run size estimation - Operation of Junction City Weir, hatchery monitoring
269

Data Management

Information will be retained in the TRRP Office in addition in compliance with the CVPIA Data 

Guidance. Following peer review, publications, reports, and data packages will be published at 

www.trrp.net/dataport.

Risks

No Data.

Cost Estimate

Year Fund Total BOR FWS

2020 WRR $9,991,221 $9,991,221 $0

2021 WRR $9,991,221 $9,991,221 $0

2022 WRR $9,991,221 $9,991,221 $0

2023 WRR $9,991,221 $9,991,221 $0

2024 WRR $9,991,221 $9,991,221 $0

2025 WRR $9,991,221 $9,991,221 $0

Total Cost: $59,947,326
270

Internal Agency Resources Table

Type Name Rate Frac MU Total Agency Fund Description

2020

Non-Labor TRRP Office Operations 

and Support Tasks

$793,433 1.0 1.0 $768,433 Reclamation WRR Includes building lease, fleet vehicles, Annual 

Report editing (TSC), Meeting notetaker 

contract

Labor TRRP Admin Personnel $437,287 1.0 1.0 $437,287 Reclamation WRR Secretary, Grants specialist, Indian Self 

Determination Specialist

Labor TMC 0 1.0 1.0 $0 Reclamation WRR TMC participation is by NCAO Area Manager 

and is not included in TMC budget

638 AFA TMC $157,131 1.0 1.0 $157,131 Hoopa 

Valley Tribe

WRR Meeting attendance and program 

participation by Tribal administrators

638 AFA TMC $145,552 1.0 1.0 $145,552 Yurok Tribe WRR Meeting attendance and program 

participation by Tribal administrators

638 AFA Technical Assistance $444,083 1.0 1.0 $444,083 Hoopa 

Valley Tribe

WRR Technical work group participation, 

hydrograph development, policy review, 

TRRP Refinements participation

638 AFA Technical Assistance $452,331 1.0 1.0 $452,331 Yurok Tribe WRR Technical work group participation, 

hydrograph development, policy review, 

TRRP Refinements participation

Implementation

Labor Implementation 

Personnel

$498,983 1.0 1.0 $498,983 Reclamation WRR Implementation Branch Chief, engineer, 

outreach coordinator, civil engineering 

technicians (2), natural resource specialist

Contract Miscellaneous $250,000 1.0 1.0 $250,000 Reclamation WRR Improvement to property in floodway, 

temporary access agreements for restoration 

projects
271

Type Name Rate Frac MU Total Agency Fund Description

Contract Planning $630,421 1.0 1.0 $630,421 Reclamation WRR Three contracts: NEPA support, Biological 

Assessment Development, geophysical 

support services

638 AFA Design & Support 

Services

$183,742 1.0 1.0 $183,742 Hoopa 

Valley Tribe

WRR Development and review of restoration 

designs

638 AFA Design & Support 

Services

$282,247 1.0 1.0 $282,247 Yurok Tribe WRR Development and review of restoration 

designs

638 AFA Construction (Non 

(b)(1) note $1.5M

$1,500,000 0.5 1.0 $750,000 Hoopa 

Valley Tribe

WRR Construction of Dutch Creek Channel Rehab 

site. Other 50% under (b)(1) Charter

638 AFA Construction (Non 

(b)(1) note $1.5M

$1,500,000 0.5 1.0 $750,000 Yurok Tribe WRR Construction of Dutch Creek Channel Rehab 

site. Other 50% under (b)(1) Charter

638 AFA Construction (Non 

(b)(1) note $1.5M

$207,056 1.0 1.0 $207,056 Yurok Tribe WRR Large wood supply

Non-Labor Construction (Non 

(b)(1) note $1.5M

$40,000 1.0 1.0 $40,000 Reclamation WRR Value engineering study for new designs

638 AFA Construction (Non 

(b)(1) note $1.5M

$126,856 1.0 1.0 $126,856 Yurok Tribe WRR Gravel augmentation implementation

638 AFA Construction (Non 

(b)(1) note $1.5M

$75,304 1.0 1.0 $75,304 Hoopa 

Valley Tribe

WRR Irrigation and maintenance of restoration site 

revegetation

Non-Labor Construction (Non 

(b)(1) note $1.5M

$50,000 1.0 1.0 $50,000 Reclamation WRR Test pitting and development of geologic 

report for new project sites

Agreements Watershed 

Implementation Grants

$500,000 1.0 1.0 $500,000 Other WRR Grant(s) for tributary restoration work to 

government and NGO applicants

Science

Labor Science Program 

Support

$446,648 1.0 1.0 $446,648 Reclamation WRR Science Branch Chief, data steward, physical 

scientists (2), natural resource specialist

638 AFA Science Program 

Support

$187,389 Hoopa 

Valley Tribe

Salary for program Riparian Ecologist
272

Type Name Rate Frac MU Total Agency Fund Description

Status & Trend 

Monitoring

638 AFA Redd Distribution $80,026 1.0 1.0 $80,026 Yurok Tribe WRR Redd and carcass surveys

638 AFA Redd Distribution $100,292 1.0 1.0 $100,292 Hoopa 

Valley Tribe

WRR Redd and carcass surveys

Interagency 

Agreement

Redd Distribution $7,485 1.0 1.0 $7,485 USFS WRR Redd and carcass surveys

638 AFA Outmigrant monitoring $545,788 1.0 1.0 $545,788 Yurok Tribe WRR Operation of screw traps and data analysis

638 AFA $306,771 1.0 1.0 $306,771 Hoopa 

Valley Tribe

WRR Operation of screw traps and data analysis

Contract Gravel Implementation 

Monitoring

$110,658 1.0 1.0 $110,658 Reclamation WRR Mapping of gravel movement through time

Interagency 

Agreement

Stream Gaging $238,400 1.0 1.0 $238,400 USGS WRR Monitoring of mainstem flow and 

temperature

638 AFA Chinook CWT $197,937 1.0 1.0 $197,937 Hoopa 

Valley Tribe

WRR Purchase and application of coded wire tags 

to hatchery fish

638 AFA Chinook Run Size 

Estimation

$71,055 1.0 1.0 $71,055 Hoopa 

Valley Tribe

WRR Mark-recapture of hatchery fish to inform 

cohort reconstruction

638 AFA Tribal Harvest 

Monitoring

$180,000 1.0 1.0 $180,000 Yurok Tribe WRR Quantification of on-reservation salmon 

harvest

638 AFA Tribal Harvest 

Monitoring

$117,506 1.0 1.0 $117,506 Hoopa 

Valley Tribe

WRR Quantification of on-reservation salmon 

harvest

638 AFA Fall Run Scale Age $93,174 1.0 1.0 $93,174 Hoopa 

Valley Tribe

WRR Fish aging to inform cohort reconstruction

638 AFA Fall Run Scale Age $49,549 1.0 1.0 $49,549 Yurok Tribe WRR Fish aging to inform cohort reconstruction

638 AFA Sport Harvest/Trinity 

Creel Survey

$100,216 1.0 1.0 $100,216 Hoopa 

Valley Tribe

WRR Monitoring of sport harvest by non-tribal 

members on HVT reservation
273

Type Name Rate Frac MU Total Agency Fund Description

Effectiveness 

Monitoring

Agreements Flow Management 

Science

$496,230 1.0 1.0 $496,230 Other WRR Targeted science solicitation for proposals 

addressing questions related to restoration 

flow optimization

638 AFA Channel Rehab 

Effectiveness 

Monitoring

$50,000 1.0 1.0 $50,000 Hoopa 

Valley Tribe

WRR Field surveys and re-modeling of restoration 

sites to assess performance over time

638 AFA Channel Rehab 

Effectiveness 

Monitoring

$50,000 1.0 1.0 $50,000 Yurok Tribe WRR Field surveys and re-modeling of restoration 

sites to assess performance over time
274

San Joaquin River Restoration Program - Mendota Pool Bypass 

and Reach 2B Project

Construction of Mendota Pool Bypass for flow routing and fish passage

DCN: 20INDP003

Classification: Improvement, Administration

Location: San Joaquin River, San Joaquin Upper Mainstem

Funding Years: 2020 - 2024

Benefits Start Year: 2020

Priority: 1 - All CVPIA Restoration Funds will be applied to this project. Additional 

funding will come from other sources.

Partners: USFWS, CDFW, DWR

Related Programs: San Joaquin River Restoration Program

Authority

Provision Percentage

SJRRP (PL111-11) 100.0%

Project Management Team

Don Portz, SJRRP Program Manager, 916-978-5464, dportz@usbr.gov

Jessica Andrieux, Natural Resource Specialist, 916-978-5461, jandrieux@usbr.gov

Towns Burgess, SJRRP Lead Fish Biologist, 916-978-5446, oburgess@usbr.gov

Metrics

Restore and maintain fish populations. Visit the San Joaquin River Restoration Program website 

www.restoresjr.net for project details.

Deliverables

9/30/2024 Report on acquisition of land and construction of Mendota Pool fish screen

Deliverables in all years of this project will be coordinated with the CVPIA Data Manager, CVPIA 

Science Coordinator, and CVPIA Fish Resource Area Coordinator.

Narrative

The San Joaquin River Restoration Program (Program) has identified entrainment as a limiting 

factor for accomplishing spring-run Chinook salmon population goals in the Program’s Fisheries 

Framework: Spring-run and Fall-run Chinook Salmon (2018). Conditions necessary for 

reestablishment of spring-run and fall-run Chinook salmon in the San Joaquin River must include 

volitional fish passage, sufficient flows to manage temperatures in the river, and basic habitat needs. 

To accomplish this goal, the Funding Constrained Framework for Implementation (2018) specifies 

in Stage 1 of the restoration, which extends from federal fiscal year (FY) 2017 through 2024, that 
275

construction of the Mendota Pool Bypass and fish screen are priorities. In order to protect 

emigrating juvenile Chinook salmon from water deliveries that would be diverted from the San 

Joaquin River to Mendota Pool (2.5 miles northeast of Mendota, California), a fish screen is being 

designed for installation adjacent to the head of the Compact Bypass at the Mendota Pool Control 

Structure (Record of Decision for San Joaquin River Restoration Program’s Mendota Pool Bypass 

and Reach 2B Improvements Project 2016). The fish screen would keep emigrating juvenile salmon 

in the river and guide them to the Compact Bypass during water deliveries, where they can continue 

their downstream migration. The Compact Bypass is planned to be operated for Exchange 

Contractor diversions in summer months in highly infrequent dry years or during flood flow 

deliveries. The screen would be designed to pass flow up to 2,500 cfs. The type of fish screen has 

not yet been determined, however the fish screen facility would be designed to NMFS fish screen 

criteria for approach, sweeping, and bypass entrance velocities (NMFS 2008). 

Fiscal year 2020 funds would be directed toward the acquisition of a realty holding by BB Limited 

Corporation. Parcels held by BB Limited Corporation are the footprint for the Mendota Pool 

Compact Bypass and Fish Screen and are a necessary to begin design and construction of water 

conveyance and fish protection structures. The overall cost of the complete Mendota Pool Bypass, 

Fish Screen, and Reach 2B Levees Project is estimated to cost $336 million under the 2018 Funding 

Constrained Framework for Implementation projection. This project is part of the San Joaquin 

River Restoration Program actions to implement the 2006 Stipulation of Settlement in Natural 

Resources Defense Council, et al. v. Kirk Rodgers, et al. 

For more information, please visit the San Joaquin River Restoration Program website 

www.restoresjr.net. 

Data Management

Data will be retained by the San Joaquin River Restoration Program office in Mid-Pacific Region.

The PMT Data Steward will coordinate with external partners and biannually with the CVPIA Data 

Manager on the transmission of long-term monitoring and other pertinent data defined by the SIT 

and the PMT per the 2020 Data Guidance.

Field data will be recorded on data sheets or directly into a recording device/computer and 

transferred into a computer spreadsheet or database. The PMT Data Steward will coordinate with 

the CVPIA Data Manager on the transmission of relevant and pertinent data defined by the SIT and 

the PMT per the 2020 Data Guidance. Field data, analyses, and reports will be stored and backed 

up on a PMT computer/server.

Pre-project and Post-Project Monitoring Plans

Monitoring plans will follow guidance established for the Program and described in the Fisheries 

Framework: Spring-run and Fall-run Chinook Salmon (2018) and will be coordinated with the 

CVPIA Data Manager, CVPIA Fish Resource Area Coordinator, and others as described in the 

Deliverables and Data Management sections.
276

Risks

Risk Likelihood Impact

Potential delays in construction contracts due to land 

acquisition negotiations

2 2

Cost Estimate

Year Fund Total BOR FWS

2009 – 2019 CVPRF $20,000,000 $20,000,000 $0

2020 CVPRF $2,000,000 $2,000,000 $0

2021 CVPRF $2,000,000 $2,000,000 $0

2022 CVPRF $2,000,000 $2,000,000 $0

2023 CVPRF $2,000,000 $2,000,000 $0

2024 CVPRF $2,000,000 $2,000,000 $0

2025 CVPRF $2,000,000 $2,000,000 $0

Total Cost: $32,000,000
277

Internal Agency Resources Table

Type Name Rate Frac. MU Total Agency Fund Description

2020

Acquisition

Agreement Land Acquisition $2,000,000 0.00 0.00 $2,000,000 BOR CVPRF

2021

Acquisition

Agreement Land Acquisition $2,000,000 1.00 0.00 $2,000,000 BOR CVPRF

2022

Acquisition

Agreement Land Acquisition $2,000,000 1.00 0.00 $2,000,000 BOR CVPRF

2023

Acquisition

Agreement Land Acquisition $2,000,000 1.00 0.00 $2,000,000 BOR CVPRF

2024

Acquisition

Agreement Land Acquisition $2,000,000 1.00 0.00 $2,000,000 BOR CVPRF

2025

Acquisition

Agreement Land Acquisition $2,000,000 1.00 0.00 $2,000,000 BOR CVPRF
278

Habitat Restoration Program (HRP) Protection and Habitat 

Restoration Projects

Land Protection and Habitat Restoration Projects

DCN: 20INDP004

Classification: Improvement, Habitat Acquisition

Location: Central Valley Wide

Funding Years: 2020 - 2022

Benefits Start Year: 2020

Priority: 1 - Program Priority

Partners: River Partners, Santa Clara Valley Open Space Authority, Sierra Foothill 

Conservancy, Center for Natural Lands Management, California Rangeland 

Trust, Bureau of Land Management, U.S. Fish and Wildlife Service National 

Wildlife Refuges

Related Programs: Central Valley Project Conservation Program

Authority

Provision Percentage

HRP (b)(1) 100.0%

Metrics

Name Value Units Comment

Number of acres of habitat 

restored for SWRCB Decision 

1641

67 acres Acres restored through habitat restoration 

actions for D-1641

Number of acres of habitat 

protected

71 acres Acres protected through fee title 

acquisition and/or conservation easement 

actions

Number of acres of habitat 

restored

~300 acres Acres restored through habitat restoration 

actions

Number of acres of habitat 

protected for SWRCB 

Decision 1641

71 acres Acres protected through fee title 

acquisition or conservation easement 

actions for D-1641

Increases in population 

numbers from restoration 

actions

2 number of 

improvements

These actions will contribute towards 

recovery criteria goals.

Increases in various habitat 

types per acre

1 acres Improvements in quantity of habitat types 

per acre from habitat restoration activities.

Number of Recovery Actions 4 number of 

actions

These actions will contribute toward 

recovery criteria goals.
279

Deliverables

Date Title

Sep. 2021 Protection actions completed

Sep. 2021 Restoration actions completed

Sep. 2021 Species surveys completed

Narrative

Improvement activities will include land acquisition and habitat restoration projects to conserve 

CVP-impacted listed species and habitats, and species surveys to facilitate habitat restoration. Land 

acquisition includes the purchase and permanent protection of lands in fee title or conservation 

easement that support populations of endangered, threatened, and other species of concern. Habitat 

restoration involves the re-establishment of native vegetation and other habitat components to 

degraded lands that historically supported CVP-impacted listed species whose populations are 

present nearby. Species surveys include threatened and endangered species surveys to be conducted 

for environmental compliance purposes to facilitate the restoration of CVP-impacted species 

habitats. All funded projects are designed to meet specific recovery criteria in U.S. Fish and Wildlife 

Service species recovery plans.

Data Management

Information for this Charter, including all project files, will be permanently housed at BOR's MidPacific Regional Office in Sacramento, and FWS's Pacific Southwest Regional Office in Sacramento. 

Additional information may be found at the CVPCP/HRPs website at 

http://www.usbr.gov/mp/cvpcp/.

Risks

No Data.

Cost Estimate

Year Fund Total BOR FWS

2020 CVPRF $1,146,474 $581,008 $565,466

2021 CVPRF $1,135,009 $575,198 $559,811 

2022 CVPRF $1,123,659 $569,446 $554,213

Total Cost: $3,405,142
280

Internal Agency Resources Table

Type Name Rate Frac. MU Total Agency Fund Description

2020

Acquisition – Land protection 

through fee title and conservation 

easement purchase

Agreement Land Protection 

Projects

NA NA 0.00 $401,237 BOR CVPRF BOR-funded Land Protection 

Projects

Implementation – Habitat 

restoration projects

Agreement Habitat Restoration 

Projects

NA NA 0.00 $565,466 FWS CVPRF FWS-funded Habitat Restoration 

Projects

Agreement Habitat Restoration 

Projects

NA NA 0.00 $100,771 BOR CVPRF BOR-funded Habitat Restoration 

Projects

Implementation – Species surveys

Agreement Species Surveys 

Projects

NA NA 0.00 $79,000 BOR CVPRF BOR-funded Species Surveys 

Projects

2021

Acquisition – Land protection 

through fee title and conservation 

easement purchase

Agreement Land Protection 

Projects

NA NA 0.00 $425,198 BOR CVPRF BOR-funded Land Protection 

Projects. 

Implementation – Habitat 

restoration projects

Agreement Habitat Restoration 

Projects

NA NA 0.00 $559,811 FWS CVPRF FWS-funded Habitat Restoration

Projects

Agreement Habitat Restoration 

Projects

NA NA 0.00 $150,000 BOR CVPRF BOR-funded Habitat Restoration 

Projects
281

Type Name Rate Frac. MU Total Agency Fund Description

2022

Acquisition – Land protection 

through fee title and conservation 

easement purchase

Agreement Land Protection 

Projects

NA NA 0.00 $419,446 BOR CVPRF BOR-funded Land Protection 

Projects

Implementation – Habitat 

restoration projects

Agreement Habitat Restoration 

Projects

NA NA 0.00 $554,213 FWS CVPRF FWS-funded Habitat Restoration 

Projects

Agreement Habitat Restoration 

Projects

NA NA 0.00 $150,000 BOR CVPRF BOR-funded Habitat Restoration 

Projects