U.S. Department of the Interior February 2021 

Public Draft Workplan

Fiscal Year 2021 Obligation Plan for

CVPIA Authorities

Central Valley Project, California

Interior Region 10 – California-Great Basin
FY2021 CVPIA Obligation Plan - Public Draft

Mission Statements

The Department of the Interior (DOI) conserves and manages the 

Nation’s natural resources and cultural heritage for the benefit and 

enjoyment of the American people, provides scientific and other 

information about natural resources and natural hazards to address 

societal challenges and create opportunities for the American people, 

and honors the Nation’s trust responsibilities or special commitments 

to American Indians, Alaska Natives, and affiliated island 

communities to help them prosper.

The mission of the Bureau of Reclamation is to manage, develop, and 

protect water and related resources in an environmentally and 

economically sound manner in the interest of the American public.

Cover Photos: 2020 channel realignment and juvenile rearing habitat restoration on Clear Creek 

near Redding, California. Before construction (top left); after construction (bottom right).

(Reclamation/Derek Rupert - NCAO)
iii

Contents

Contents.............................................................................................................................................................iii

Introduction........................................................................................................................................................1

Background.........................................................................................................................................................1

Fish Resource Area............................................................................................................................................3

Refuge Water Supply Program.........................................................................................................................5

Independent Programs......................................................................................................................................7

Habitat Restoration Program ....................................................................................................................7

San Joaquin River Restoration Program..................................................................................................7

Trinity River Restoration Program...........................................................................................................8

Summary..............................................................................................................................................................9

Attachment 1 – Fiscal Year 2021 Planned Obligations by Watershed and identifies CVPIA 

Authorities.....................................................................................................................................................11

Attachment 2 – Fiscal Year 2021 Annual Obligation Plan Charters........................................................21

Description of Charter Information .............................................................................................................22

Fisheries Charters.............................................................................................................................................23

American River..........................................................................................................................................24

Special Study: American River Juvenile Salmonid and Habitat Monitoring.................................24

Status and Trend: American River Rotary Screw Trap Monitoring ..............................................29

Habitat and Facility Improvement: American River Salmonid Habitat Restoration .................32

Butte Creek ................................................................................................................................................36

Special Study: 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.........................................................................................................36

Central Valley Wide ..................................................................................................................................39

Real Time Operations: Central Valley Prediction and Assessment of Salmon............................39

Status and Trend Monitoring: Data & Analytic Support ................................................................41

Special Study: Food Temperature Optimization Model for CVP..................................................44

Special Studies: Measuring the Impact of Removing Predator Contact Points on Juvenile 

Salmon Survival ..................................................................................................................................47

Status and Trend Monitoring: Modeling Program...........................................................................52

Status and Trend Monitoring: Pacific States Marine Fisheries Commission ColemanNimbus Hatcheries ............................................................................................................................59

Status and Trend: Science Support to Operate Continuous Tidal Flow and Turbidity 

Stations with USGS............................................................................................................................61

Clear Creek.................................................................................................................................................63

Habitat and Facility Improvement: Clear Creek Gravel Injection.................................................63

Habitat and Facility Improvement: Clear Creek Phase 3B Completion .......................................68

Habitat and Facility Improvement: Clear Creek Stream Channel Restoration Phase 3C...........72
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Delta............................................................................................................................................................76

Special Studies: Bay-Delta Collaborative Science and Adaptive Management Study 

Program with Delta Stewardship Council ......................................................................................76

Real Time Operations: Coordinated Enhanced Acoustic Telemetry Program............................79

Real Time Operations: Delta Juvenile Fish Monitoring Program .................................................84

Special Study: Directed Outflow Project (DOP): Paired Habitat Sampling.................................87

Special Study: Drivers of Delta Smelt Health and Growth ............................................................90

Special Study: Eco Hydraulic Modeling with USACE ....................................................................93

Status and Trend: Environmental Monitoring Program with the California Department of 

Water Resources.................................................................................................................................96

Intervention: Facility Improvement for Delta Smelt Supplementation........................................99

Status and Trend: Fish Monitoring with the California Department of Fish and Wildlife......101

Habitat and Facility Improvement: Head of Old River Scour Hole ...........................................104

Special Study: Predator Hot Spot Feasibility, Field Support, and Analysis................................107

Status and Trend: Structured Decision-Making of Scientific Management in the 

Sacramento – San Joaquin Delta....................................................................................................110

Special Study: Steelhead Lifecycle Monitoring Program...............................................................113

Habitat and Facility Improvement: Tracy Fish Facility Improvement Program.......................116

Habitat and Facility Improvements: Yolo Bypass Salmonid Habitat Recreation Mitigation...119

Habitat and Facility Improvement: Yolo Bypass Salmonid Habitat Restoration and Fish 

Passage ...............................................................................................................................................121

Feather River........................................................................................................................................... 124

Habitat and Facility: Feather River: Sunset Pumps Sturgeon and Salmon Passage ..................124

Habitat and Facility Improvement: Nelson Slough - Feather River/Sutter Bypass..................129

Sacramento River................................................................................................................................... 132

Intervention: Battle Creek Winter-Run Chinook Reintroduction and Restoration Project.....132

Real Time Operations: Coded Wire Tags for Late-Fall Run Chinook Salmon Spring-Run 

Surrogate Tagging Program............................................................................................................134

Special Studies: Food for Fish - Reintegrating Floodplain Food Web Productivity into the 

River Aquatic Ecosystem................................................................................................................136

Special Studies: Green Sturgeon Juvenile Investigation ................................................................147

Real Time Operations: Red Bluff Diversion Dam Rotary Screw Traps.....................................151

Real Time Operations: Sacramento River Basin Salmonid Monitoring with Pacific States.....154

Habitat and Facility Improvement: Sacramento River - Improve Spawning Habitat above 

Temperature Control Points...........................................................................................................157

Habitat and Facility Improvement: Sacramento River Tisdale Weir Sturgeon and Salmonid 

Passage ...............................................................................................................................................161

Habitat and Facility Improvement: Sacramento River Salmonid Habitat Improvement –

Keswick to Red Bluff.......................................................................................................................165

Habitat and Facility Improvement: Sacramento River Salmonid Habitat Improvement –

Red Bluff to Feather River..............................................................................................................169

Sacramento River-San Joaquin River.................................................................................................. 173

Intervention: Delta Smelt Supplementation Studies: Genetics and Tagging..............................173

Real-Time Operations: Enhanced Delta Smelt Monitoring Program (EDSM).........................175

Intervention: FCCL Conservation Hatchery Operation for Delta Smelt Refuge Population 

Maintenance and Research Support ..............................................................................................178

Intervention: Use of Cultured Delta Smelt in Field Studies.........................................................181

Stanislaus River....................................................................................................................................... 184
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Status and Trend: Stanislaus River Rotary Screw Trap Monitoring ............................................184

Habitat and Facility Improvement: Stanislaus River Salmonid Spawning and Rearing 

Habitat Restoration..........................................................................................................................187

Refuge Water Supply Program Charters.................................................................................................... 191

Refuge: Refuge Water Acquisition Program ...................................................................................192

Refuge: Incremental Level 4 Refuge Water Conveyance ..............................................................194

Refuge: Level 2 Refuge Water Conveyance (FY2021)...................................................................197

Refuge: East Bear Creek Pump Repair............................................................................................201

Refuge: Biggs-West Gridley/Gray Lodge Construction ...............................................................204

Refuge: Pixley National Wildlife Refuge..........................................................................................207

Refuge: Sutter Construction ..............................................................................................................209

Independent Programs Charters................................................................................................................. 213

Habitat and Facility Improvement: Trinity River Restoration Program (TRRP) ......................214

Real Time Operations: Trinity River Restoration Program (TRRP) Record Of Decision 

(ROD) Restoration Actions............................................................................................................217

Habitat and Facility Improvement: San Joaquin River Restoration Program............................220

Habitat and Facility Improvement: Habitat Restoration Program (HRP)..................................223

Unfunded Charters....................................................................................................................................... 227

Special Studies: Central Valley Wild Salmonid Demographics.....................................................228

Special Studies: Develop a Methodology for Rockwad Habitat Design.....................................231

Status and Trend: SIT Critical Uncertainty Reduction..................................................................235
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FY2021 CVPIA Obligation Plan - Public Draft

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Introduction

The Central Valley Project (CVP) is one of the Bureau of Reclamation’s (Reclamation) largest and 

most important water projects, storing and delivering nearly 12 million acre-feet of water in support 

of California’s farms, cities, wildlife refuges, and fish and wildlife. Reclamation serves these water 

supply needs through the balancing of competing statutory responsibilities. Reclamation’s goal is to 

provide and enhance water and hydropower reliability for California communities, agriculture, 

fisheries, and wildlife refuges, in accordance with its statutory responsibilities, including compliance 

with Endangered Species Act (ESA) requirements for listed species within the project area. 

This workplan describes Reclamation’s Fiscal Year 2021 planned obligations using the authorities 

provided by the Central Valley Project Improvement Act (CVPIA), Title 34 of Public Law 102-575. 

This workplan builds upon and expands prior CVPIA workplans to cover activities using CVPIA 

authorities from both the Central Valley Project Restoration Fund (Restoration Fund) and other 

Federal appropriations. Through this workplan Reclamation identifies potential financial obligations 

to CVP water users and power customers and serves as a vehicle for continued discussion and 

feedback on program implementation from stakeholders and the public.

The ability to obligate funds consistent with this workplan will depend upon collections into the 

Restoration Fund, enactment of other Federal appropriations, and execution of contracts and 

agreements. Once obligated, funds become available for expenditure, which may span multiple 

years. CVP water users and power customers incur a reimbursable obligation only after Reclamation 

is invoiced and an expenditure recorded. Funds no longer required under contracts and agreements 

may be de-obligated and re-obligated on a similar or different authorized activity. Scopes of work, 

budgets, timelines, and priorities may change in the course of implementing programs. Reclamation 

will continue to use existing forums to communicate such deviations when identified. 

Background

The 1992 passage of the CVPIA, in part, amended previous authorizations of the CVP to include 

fish and wildlife protection, restoration, and mitigation as project purposes having equal priority 

with irrigation and domestic uses, and fish and wildlife enhancement as a project purpose equal to 

power generation. Section 3406 of the CVPIA authorized water operations, programs, and projects

to support fish and wildlife. Section 3407 established the Central Valley Project Restoration Fund 

(Restoration Fund) for donations from any source and revenues provided through payments by 

CVP water and power customers for carrying out the fish and wildlife provisions of Title 34.

Reclamation and the U.S. Fish and Wildlife Service (Service) jointly implement the CVPIA programs 

using the Restoration Fund. Reclamation and the Service coordinate CVPIA programs with the 

National Marine Fisheries Service (NMFS) and the State of California represented by the 

Department of Fish and Wildlife (CDFW) and Department of Water Resources (DWR).
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Subsequent legislation and regulations continued to amend or augment authorizations of the CVP 

and relied upon many of the authorities added from the CVPIA, most notably on measures to 

address fish species. Examples include compliance with the Endangered Species Act (ESA) for the 

operation of the CVP, compliance with the State of California Water Quality Control Plan for the 

Bay Delta (State Water Resources Control Board Decision 1641, “D-1641”), the CalFed Bay-Delta 

Authorization Act (CalFed), Title 1 of Public Law 108-361, and the Water Infrastructure 

Improvements for the Nation (WIIN) Act, Subtitle J of Public Law 114-322, among others.

Reclamation operates the CVP under Biological Opinions issued by the Service and NMFS and in 

coordination with DWR’s operation of the State Water Project (SWP).

Section 3406 of the CVPIA authorizes programs and activities to support fish and wildlife. These 

authorities generally fall into the following areas:

• Fish Resource Area - Activities under section 3406(b) and (g) of the Act to improve the 

natural production of anadromous fish, address other adverse environmental impacts of the 

Central Valley Project, mitigate for fishery impacts associated with operations of the Tracy 

Pumping Plant, assist efforts to protect the waters of the Bay-Delta Estuary, and to help 

meet obligations under the Federal Endangered Species Act;

• Refuge Water Supply Program - Activities under section 3406(d) of the Act to provide firm 

water supplies of suitable quality to maintain and improve wetland habitat areas on units of 

the National Wildlife Refuge System in the Central Valley of California; on the Gray Lodge, 

Los Banos, Volta, North Grasslands, and Mendota state wildlife management areas; and on 

the Grasslands Resources Conservation District in the Central Valley of California; and

• Independent Programs -

o Habitat Restoration Program (HRP) - Activities authorized under section 3406(b)(1) 

to mitigate the other adverse environmental impacts of the CVP on ESA-listed 

species other than anadromous fish,

o San Joaquin River Restoration Program (SJRRP) - Use of the Restoration Fund

authorized by Section 10009(b)(2) of Public Law 111-11 for activities to implement 

the Stipulation of Settlement for NRDC, et al. v. Rodgers, et al., (2006) and

o Trinity River Restoration Program (TRRP) - Activities to implement the Trinity 

River flows under Section 3406(b)(23) and to complete the channel restoration 

actions under the other adverse environmental impacts of the CVP under 3406(b)(1).

Annually Reclamation prioritizes the Restoration Fund, subject to annual appropriations and current 

administration and Departmental focus, to the following areas:

1. Deliver Level 2 CVP water supplies to wildlife refuges

2. Long-Term Monitoring Data 

3. Independent Programs/Incremental Level 4/Fisheries Habitat 

Improvement projects

Subsequent sections of this workplan summarize the activities in each of the aforementioned areas.

Attachment 1 lists the planned obligations by Watershed and identifies CVPIA authorities.

Attachment 2 introduces charters with more details on the use of the Restoration Fund and other 

appropriations.
FY2021 CVPIA Obligation Plan - Public Draft

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Fish Resource Area

The Service listed Delta Smelt as threatened in 1993. NMFS listed winter-run Chinook salmon as 

threatened in 1989 and then updated to endangered in 1994; listed spring-run Chinook salmon as 

threatened in 1999; listed California Central Valley steelhead as threatened in 1998; and listed the 

southern Distinct Population Segment of Green Sturgeon as threatened in 2006. In 1999, the 

California State Water Resources Control Board issued D-1641 to adopt the 1995 Bay-Delta Plan, 

which imposed new obligations on both the CVP and SWP to protect water quality for beneficial 

uses, including fish and wildlife. Biological Opinions, beginning most significantly in 2009, set 

specific requirements for meeting the needs of listed salmon, steelhead, and sturgeon with a 

combination of restrictions on operations and mitigation requirements. In 2014, NMFS released a 

Recovery Plan for Central Valley salmon and steelhead that sets goals and prioritizes actions based 

on updated science.

In 2001, the Service refined actions from 1995 Working Papers1 to release the Final Plan for the 

Anadromous Fish Restoration Program.

2 In 2015, the CVPIA established the SIT3 to support 

formal Structured Decision Making (SDM) as an updated science-based framework to inform the 

use of the Restoration Fund on projects to improve anadromous fish. The SIT is a self-selected 

technical group made up of agency staff and stakeholders that follows the SDM process. The SIT 

works with local watershed groups and other local partners to advance the science for on-theground habitat and facility improvements in Central Valley watersheds.

The 2019 Proposed Action and Biological Opinions and the 2020 Long-Term Operations (LTO)

Record of Decision (collectively, “LTO”)4 established a road map for operating the CVP for all 

statutory requirements, with a combination of flow, habitat, facility, hatchery, and science actions for 

meeting the needs of listed species. The adaptive elements for habitat and facility improvements 

under the LTO rely upon the CVPIA Program and SIT efforts. While not all of the actions under 

the LTO rely upon CVPIA authorities and not all of the CVPIA activities fall within the LTO, the 

integration approach provides a framework for understanding the scope of Reclamation’s fisheriesrelated programs. This framework includes:

• Real-Time Operations – Data and analysis for decision-making on the day-to-day and 

seasonal operation of the CVP (e.g., Red Bluff Rotary Screw Trap, Enhanced Delta Smelt 

Monitoring “EDSM” Trawls);

1 U.S. Fish and Wildlife Service with assistance from the Anadromous Fish Restoration Program Core Group. 1995. 

Working Paper on Restoration Needs--Habitat Restoration Actions to Double

Natural Production of Anadromous Fish in the Central Valley of California, Volume 3. 

https://www.fws.gov/lodi/anadromous_fish_restoration/documents/WorkingPaper_v3.pdf 2 U.S. Fish and Wildlife Service with assistance from the Anadromous Fish Restoration Program Core Group under 

authority of the Central Valley Project Improvement Act. 2001. Final Restoration Plan For The Anadromous Fish 

Restoration Program, A plan To Increase Natural Production Of Anadromous Fish In The Central Valley Of California.

https://www.fws.gov/lodi/anadromous_fish_restoration/documents/20010109%20Final%20Restoration%20Plan%20

for%20the%20AFRP.pdf

3 U.S. Bureau of Reclamation and U.S. Fish and Wildlife Service. 2019. Science Integration Team and Science 

Coordinator. 2019 Priorities Technical Memorandum for FY2020. https://drive.google.com/file/d/1Ec3qn0WkPiygfZm-ZsdnYOUhdRl2sPd/view 4 U.S. Bureau of Reclamation. 2019. Reinitiation of Consultation on the Coordinated Long-Term Operation of the 

Central Valley Project and State Water Project. Draft Environmental Impact Statement. 

https://www.usbr.gov/mp/nepa/includes/documentShow.php?Doc_ID=41664
FY2021 CVPIA Obligation Plan - Public Draft

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• Status and Trend Monitoring - Monitoring and analysis for assessing long-term changes in

fish populations and the associated environmental and biological conditions (e.g., Bay

Surveys and certain Delta trawls);

• Habitat and Facility Improvements - Improvements to the physical environment to support

fish populations and reduce the adverse effects of infrastructure (e.g., gravel augmentation,

rearing habitat, fish screens, Delta Cross Channel Gate retrofit);

• Intervention – Protections for species when hydrologic and environmental conditions

cannot support the year classes through volitional movement and natural production,

primarily drought and dry conditions (e.g., refugial and supplementation hatchery programs,

trap and haul); and

• Special Studies - Actions to reduce uncertainty and improve the performance of real-time

operations, status and trend monitoring, habitat and facility improvements, and intervention

actions (e.g., Directed Outflow Project, Steelhead Juvenile Production Estimate).

In executing the appropriations provided by Congress for fisheries, Reclamation considered needs 

for operation of the CVP and Service programs; science-based information from the SIT, biological 

opinions, and recovery plans; and efficiency and effectiveness measures such as cost-share, local 

support, prior performance, and competition. Table 1 summarizes fisheries implementation 

expenditures using CVPIA authorities. Table 2 shows program management and administration 

costs.

Table 1. Fisheries Implementation Obligation Plan Using CVPIA Authorities

Categories LTO-ESA Non-Project Total

Real-Time Operations $19,020,059 $0 $19,020,059

Status and Trend $17,484,229 $0 $17,484,229

Habitat and Facility $44,249,163 $1,124,048 $45,373,211

Intervention $8,841,741 $0 $8,841,741

Special Study $16,442,112 $441,500 $16,883,612

Totals $106,037,304 $1,565,548 $107,602,852

Table 2. Fish Resource Area Program Management and Administration

Office Reclamation 

FTE

Reclamation 

Cost

USFWS 

FTE

USFWS 

Cost

Total 

FTE

Total Cost

Regional 1.5 $114,208 5.95 $639,692 7.45 $753,900

Lodi - - 7.33 $1,365,583 7.33 $1,365,583

Red Bluff - - 6.49 $883,156 6.49 $883,156

Bay-Delta 9.0 $2,422,449 2 $326,141 11.0 $2,748,590

Other - - - $52,547 - $52,547

Overhead - $796,152 - $1,274,176 - $2,070,328

Total 10.5 $3,332,809 21.77 $4,541,295 32.27 $7,874,104
FY2021 CVPIA Obligation Plan - Public Draft

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Table 3. Fish Resource Area Unfunded Needs: Identifies unfunded needs within FY2021, does not include long term 

Program needs or associated funding. If any action within the 2021 obligation plan is unable to be funded or delayed due 

to permitting, planning, etc., the charters below will be prioritized and funded.

Charter Authority Total

Habitat and Facility Improvements: Tracy Fish Facility Improvement 

Program

(b)(4) $463,500

Special Studies: Central Valley Wide Salmonid Demographics (g) $1,500,000

Special Studies: Develop a Methodology for Rockwad Habitat (g) $120,000

Special Studies: SIT Critical Uncertainty Reduction (g) $960,000

Refuge Water Supply Program

The Refuge Water Supply Program (RWSP) includes all provisions under section 3406(d) of the 

CVPIA to provide firm water supplies of suitable quality to maintain and improve wetland habitat 

areas on units of the National Wildlife Refuge System in the Central Valley of California; on the 

Gray Lodge, Los Banos, Volta, North Grasslands, and Mendota state wildlife management areas; 

and on the Grassland Resources Conservation District in the Central Valley of California.

The Act specifies two water delivery responsibilities. Section 3406(d)(1) “Level 2” provides that the 

quantity and delivery schedules of water measured at the boundaries of each wetland habitat area 

shall be in accordance with Level 2 of the `Dependable Water Supply Needs' table for those habitat

areas set forth in the Refuge Water Supply Report5 and two-thirds of the water supply needed for 

full habitat development for those habitat areas identified in the San Joaquin Basin Action 

Plan/Kesterson Mitigation Action Plan Report6. Section 3406(d)(2) “Incremental Level 4” provides

that the quantity and delivery schedules of water measured at the boundaries of each wetland habitat 

area shall be in accordance with Level 4 of the `Dependable Water Supply Needs' table for those 

habitat areas set forth in the Refuge Water Supply Report and the full water supply needed for full 

habitat development for those habitat areas identified in the San Joaquin Basin Action 

Plan/Kesterson Mitigation Action Plan Report, to be acquired through voluntary measures. A full 

Level 4 water supply (Level 2 plus Incremental Level 4) provides for optimum habitat management 

to support the enhancement of a broad range of species including targeted threatened and 

endangered species. Components of the RWSP include:

• Water Acquisition: purchase, exchange, and transfer for Incremental Level 4 water supplies;

• Conveyance: groundwater pumping and the conveying (wheeling) of surface sources for 

Level 2 and Incremental Level 4 water supplies; and

• Facility Construction and Acquisition: infrastructure improvements to enable the delivery of 

full Level 4 water supplies.

5 U.S. Bureau of Reclamation. 1989. Report on Refuge Water Supply Investigations. Central Valley Hydrological Basin, 

California. United States Department of the Interior, Bureau of Reclamation, Mid-Pacific Region, Sacramento, CA. 6 U.S. Bureau of Reclamation, U.S Fish and Wildlife Service, State of California, Department of Fish and Game. 1989. 

San Joaquin Basin Action Plan/Kesterson Mitigation Plan. 

https://nrm.dfg.ca.gov/filehandler.ashx?documentid=133541
FY2021 CVPIA Obligation Plan - Public Draft

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Priorities have been discussed throughout the year through an Inter-Agency Refuge Water 

Management Team (IRWMT). Reclamation and the Service hosted specific workshops with 

invitations to the IRWMT to discuss potential 2021 funding. Based on feedback, the RWSP funding 

prioritized Charters based on:

1. Program Administration;

2. Level 2 Water Conveyance;

3. Incremental Level 4 Water Acquisitions;

4. Facility Construction Projects; and

5. Unfunded needs.

Table 4. Refuge Water Supply Implementation: Summarizes the implementation of proposed 2021 projects

Program Components and Charters Restoration 

Fund

Supplemental 

Funds

Total

Level 2 Water Supply 

Level 2 Refuge Water Conveyance $16,880,801 - $16,880,801

Subtotal $16,880,801 - $16,880,801 

Incremental Level 4 

Inc. Level 4 Water Purchases and L2 

Exchanges 

$8,908,000 $5,797,000 $14,705,000

Inc. Level 4 Refuge Water Conveyance $1,198,924 $2,100,000 $3,298,924

Subtotal $10,106,924 $7,897,000 $18,003,924

Refuge Construction 

Biggs-West Gridley/Gray Lodge WA 

Project 

$976,640 - $976,640 

East Bear Creek Pump Station 

Modifications Project 

$1,500,000 - $1,500,000 

Sutter NWR Lift Station Project $500,000 $2,153,000 $2,653,000

Pixley NWR Feasibility Study - $450,000 $450,000

Subtotal $2,976,640 $2,603,000 $5,579,640

Grand Total $29,964,365 $10,500,000 $40,464,365

Table 5. Refuge Water Supply Program Management: Summarizes Program Management and costs associated with 

administering the Refuge Water Supply Program

Office Reclamation 

FTE

Reclamation 

Cost

USFWS 

FTE

USFWS 

Cost

Total 

FTE

Total 

Cost

Regional 1.5 $105,108 3.5 $331,583 5.0 $436,691

Bay-Delta 3.5 $454,539 - - 3.5 $454,539

Other - - - $28,272 - $28,272

Overhead - $156,047 - $140,342 - $296,392

Total 5.0 $715,694 3.5 $500,197 8.5 $1,215,894
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Independent Programs

These programs generally have separate oversight and resources in addition to the Restoration Fund, 

and program-specific reporting and stakeholder coordination requirements.

Habitat Restoration Program

Reclamation and the Service manage the Habitat Restoration Program (HRP) jointly with the 

Central Valley Project Conservation Program (CVPCP) with the overall objective of improving 

conditions for impacted species and habitats, excluding fish. The CVPCP and HRP utilize a 

proposal solicitation process to fund and carry out conservation actions within the areas served by 

the Central Valley Project. At the beginning of each annual funding cycle, a Funding Opportunity 

Announcement (FOA) is posted on www.grants.gov with a solicitation period of approximately 120 

days. Table 6 shows the funding for the HRP Charter. 

Table 7 indicates the program management and administration funding for HRP. Historical projects 

and reports and contact information for more information are available at: 

http://www.usbr.gov/mp/cvpcp.

Table 6. Habitat Restoration Program Charters

Program Area Restoration Fund Total 

HRP Protection and Habitat Restoration Projects $1,096,832 $1,096,832

Total $1,096,832 $1,096,832

Table 7. Habitat Restoration Program Management

Office Reclamation 

FTE

Reclamation 

Cost

USFWS 

FTE

USFWS 

Cost

Total 

FTE

Total Cost

Regional 1 $161,504 1 $131,001 2.0 $292,505

Other - - - $11,673 - $11,673

Overhead - $43,346 - $55,643 - $98,989

Total 1 $204,850 1 198,317 2.0 $403,168

San Joaquin River Restoration Program

The San Joaquin River Restoration Settlement Act (Title X, Subtitle A, Part I of Public Law 111-11), 

authorizes and directs implementation of the settlement in NRDC, et al., v. Rodgers, et al. Section 

10007 of the Settlement Act finds and declares that the settlement satisfies and discharges all of the 

obligations of the Secretary contained in Section 3406(c)(1) of the CVPIA. Section 10009(b)(2) 

authorizes the use of the CVP Restoration Fund in an amount not to exceed $2,000,000 (October

2006 price levels) in any fiscal year. CVPIA funded activities for the SJRRP Charter is reflected in 

Table 8. 
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Table 8. San Joaquin River Restoration Program

*The SJRRP utilizes specific funding appropriated to the Program outside of the Restoration Fund. Those activities are 

not identified within this Work Plan.

Trinity River Restoration Program

The Trinity River Restoration Program (TRRP) was founded in 2000 based on three comprehensive 

foundational documents: the Trinity River Flow Evaluation Final Report7; the Trinity River Environmental 

Impact Statement 8; and the Trinity River Mainstem Fishery Restoration Record of Decision 9. These documents 

established a comprehensive science-based adaptive management program to restore the Trinity 

River’s fishery resources. The Program’s overarching goal is to restore anadromous fish populations 

to pre-dam levels. Activities that contribute to that end include mechanical channel rehabilitation, 

sediment management, instream flow releases, and watershed restoration. Table 9 shows the TRRP 

Charter. 

Table 9. Trinity River Restoration Program

Charter Restoration 

Funds

Other 

Appropriations

Total

CVP Restoration Fund TRRP Channel 

Restoration Projects 

$1,500,000 $1,500,000 

WRR Funding of TRRP Record of 

Decision Restoration Activities 

$9,991,221 $9,991,221 

Total $1,500,000 $9,991,221 $11,491,221 

7 U.S. Fish and Wildlife Service. Arcata Fish and Wildlife Office, Hoopa Valley Tribe. (1999). Trinity River flow 

evaluation. Final report: a report to the Secretary, U.S. Department of the Interior. 

https://www.trrp.net/DataPort/doc.php?id=226

8 U.S. Army Corps of Engineers. (2000). Upper Trinity River Basin, Trinity River, programmatic EIS: Environmental 

Impact Statement.

9 U.S. Department of Interior. 2000. Record of decision, Trinity River mainstem fishery restoration final environmental 

impact statement/environmental impact report. https://www.trrp.net/DataPort/doc.php?id=227

Charter Restoration Funds 

SJRRP - Mendota Pool Bypass and Reach 2B Project $2,000,000 

Total $2,000,000 
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Summary

Table 10 summarizes anticipated obligations on CVPIA authorities from the Restoration Fund and 

Other Appropriations, the water and power reimbursable exposure if and when expenditures occur, 

and the offsetting payments into the Restoration Fund. 

Table 10. Total FY2021 Planned Obligations under CVPIA Authorities and Water and Power Reimbursability

Resource Area and 

Category

2021 

Restoration 2021 Other

Total 

Obligation

Total 

Reimbursable 

Fish $19,694,744 $87,908,108 $107,602,852 $41,024,523

Habitat and Facility $14,354,887 $31,018,324 $45,373,211 $22,981,082

Intervention $0 $8,841,741 $8,841,741 $2,153,153

Real Time Operations $1,444,055 $17,576,004 $19,020,059 $6,450,858

Special Studies $2,472,302 $14,411,310 $16,883,612 $3,775,991

Status and Trend $1,423,500 $16,060,729 $17,484,229 $5,663,440

Refuge $31,180,256 $10,500,000 $41,680,256 $18,755,002 

Level 2 $18,946,846 $1,845,840 $20,792,686 $18,755,002 

Level 4 $12,233,411 $8,654,160 $20,887,571 $0 

Independent $5,000,000 $9,991,221 $14,991,221 $11,718,081 

HRP $1,500,000 $0 $1,500,000 $1,353,000 

SJRRP $2,000,000 $0 $2,000,000 $0 

TRRP $1,500,000 $9,991,221 $11,491,221 $10,365,081 

Totals $55,875,000 $108,399,329 $164,274,329 $71,497,606
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Attachment 1 – Fiscal Year 2021 Planned 

Obligations by Watershed and identifies CVPIA 

Authorities

Guardian Rock gravel augmentation - Clear Creek. Summer 2020. (Reclamation - Derek Rupert – NCAO)
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Resource Area, Category, and 

Watershed (* indicates LTO 

Related)

Description Authority 2021 

Restoration 

Funds

2021 Other 

Funds

Total 2021 

Cost

Reimbursable

Amount

Fish $19,694,744 $87,908,108 $107,602,852 $41,024,525

Real Time Operations $1,444,055 $17,576,004 $19,020,059 $6,450,858

Central Valley $1,444,055 $1,695,504 $3,139,559 $495,670

FWS Modeling Labor Program Staff Support (g) $164,024 $ - $164,024 $ -

FWS Dedicated Yield Program Staff Support (b)(2) $176,559 $ - $176,559 $ 159,256 

FWS CAMP Labor Program Staff Support (b)(15) $678,133 $ - $678,133 $ 254,300 

BOR Modeling Labor Program Staff Support (g) $206,368 $ 495,504 $701,872 $ -

BOR CAMP Labor Program Staff Support (b)(15) $218,971 $218,971 $ 82,114 

Central Valley Prediction and 

Assessment of Salmon

Description CVPAS for Central Valley Prediction and Assessment of 

Salmon, extends and improves the SacPAS real-time web database and 

fish forecasting tools to other river systems in the Central Valley.

(g) $ - $ 1,200,000 $1,200,000 $ -

Sacramento $5,827,208 $5,827,208 $ 2,185,203

Coded Wire Tags for Late Fall Run 

Chinook Salmon Spring Run 

Surrogate tagging program

Annually purchase coded-wire tags for insertion into Coleman hatchery 

late-fall run Chinook salmon to serve as surrogates for spring-run 

Chinook salmon

(b)(15) $ - $ 103,040 $103,040 $ 38,640

Red Bluff Diversion Dam Rotary 

Screw Traps

Juvenile salmonid production monitoring in the Sacramento River at Red 

Bluff, Clear Creek adult and juvenile monitoring, and Battle Creek adult 

and juvenile monitoring. 2009 Biological Opinion actions carried over 

into 2019 LTO PA

(b)(15) $ - $3,430,168 $3,430,168 $ 1,286,313 

Sacramento River Basin Salmonid 

Monitoring with Pacific States

Conduct annual Chinook Salmon spawning escapement surveys in the 

Sacramento River Basin (mainstem, Deer Creek, Antelope Creek, Mill 

Creek, Clear Creek, Battle Creek, Cottonwood Creek, Cow Creek, Bear 

Creek, and American River) to estimate the abundance and distribution 

of Chinook salmon spawners. Conduct effectiveness monitoring of 

salmonid habitat improvement projects in the Sacramento River basin.

(b)(15) $ - $ 2,294,000 $ 2,294,000 $ 860,250

Sacramento-San Joaquin $3,000,000 $3,000,000 $1,125,000

Enhanced Delta Smelt Monitoring 

Program (EDSM) 

Statistically based sampling program to determine absolute abundance of 

Delta Smelt, calibrate a Delta Smelt life cycle model and conduct realtime monitoring to minimize Delta Smelt entrainment

(b)(15) $ - $3,000,000 $3,000,000 $1,125,000 

Delta $7,053,292 $7,053,292 $2,644,985

Coordinated Enhanced Acoustic 

Tagging

Tagging of salmonids; coordination, operation and maintenance of 

Central Valley acoustic telemetry array; six-year steelhead study; telemetry 

data analysis and related web tools and databases.

(b)(15) $3,142,518 $3,142,518 $ 1,178,444 
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Delta Juvenile Fish Monitoring 

Program 

Monitor Bay-Delta fish community and other aquatic resources to 

support adaptive management.

(b)(15) $ - $3,910,774 $3,910,774 $ 1,466,540 

Status and Trend $1,423,500 $16,060,729 $17,484,229 $5,663,440

Central Valley $960,000 $8,126,987 $9,086,987 $2,889,474

Data and Analytic Support SIT support via data visualization & stewardship, and peer review 

management.

(g) $ 260,000 $ 421,723 $681,723 $ -

Modeling To manage, coordinate, plan and implement the CVPIA 3406(g) 

program.

(g) $ 700,000 $ - $700,000 $ -

Pacific States Marine Fisheries 

Commission Coleman-Nimbus 

Tagging

Continues the constant fractional marking program for Chinook Salmon 

from Coleman and Nimbus hatcheries. Tasks include the coded wire 

tagging and adipose fin clipping at the hatcheries, sampling the 

commercial and recreational catches for tagged and untagged salmon, 

reading tags, reading scales, and reporting results.

(b)(15) $ - $1,599,102 $1,599,102 $ 599,663 

Science Support to Operate 

Continuous Tidal Flow and Turbidity 

Stations with USGS

Monitor Bay-Delta tidal flow, water quality and biogeochemical 

conditions in the Bay-Delta to support adaptive management of CVP 

operations and inform restoration activities

(b)(15) $ - $ 6,106,162 $6,106,162 $ 2,289,811

American $ 231,750 $231,750 $ 86,906

American River Rotary Screw Trap 

project monitoring

Annual quantification of juvenile Chinook salmon production and the 

abundance of juvenile steelhead in the American River using rotary screw 

traps.

(b)(15) $ 231,750 $ - $231,750 $ 86,906 

Stanislaus $ 231,750 $ - $231,750 $ 86,906

Stanislaus River Rotary Screw Trap 

project monitoring

Annual quantification of juvenile Chinook salmon production and the 

abundance of juvenile steelhead in the Stanislaus River using rotary screw 

traps.

(b)(15) $ 231,750 $ - $231,750 $ 86,906 

Delta $7,933,742 $7,933,742 $2,600,153

Environmental Monitoring Program 

with California Department of Water 

Resources

Conduct water quality and biological monitoring at fixed stations in 

accordance with Water Right Decision D-1641

(b)(15) $ - $2,700,000 $2,700,000 $ 1,012,500

Fish Monitoring with the California 

Department of Fish and Wildlife

Monitor Bay-Delta fish community and other aquatic resources to 

support adaptive management

(b)(15) $ - $4,233,742 $4,233,742 $ 1,587,653

Structured Decision-Making of 

Scientific Management in the 

Sacramento – San Joaquin Delta

The US Bureau of Reclamation (Reclamation) has a need to support the 

ongoing Structured Decision Making (SDM)

(g) $ - $ 1,000,000 $1,000,000 $ -

Habitat and Facility $14,354,887 $31,018,324 $45,373,211 $22,981,083

Central Valley Wide $ 4,181,724 $1,752,824 $5,934,548 $4,354,223

FWS Clear Creek Labor Program Staff Support (b)(12) $562,253 $ - $562,253 $ -
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FWS AFRP Labor Program Staff Support (b)(1) $ 2,960,326 $ - $2,960,326 $ 2,670,214 

BOR Fisheries Labor Program Staff Support (b)(1) $659,145 $820,020 $1,479,165 $ 1,334,207 

Gravel Labor Program Staff Support (b)(13) $0 $418,323 $418,323 $ 156,871 

BOR Yolo Bypass Labor Program Staff Support (b)(4) $0 $514,481 $514,481 $ 192,930 

American $ 1,000,000 $2,000,000 $3,000,000 $ 1,125,000

American River Salmonid Habitat 

Restoration

Restore juvenile Chinook salmon and steelhead rearing habitat and 

enhance natural channel processes on the lower American River. Annual 

habitat improvement projects are planned for the next five years.

(b)(13) $ 1,000,000 $2,000,000 $3,000,000 $ 1,125,000 

Clear Creek $849,115 $849,115

Clear Creek Phase 3B Completion SIT support via data visualization & stewardship, and peer review 

management.

(b)(12) $ 200,000 $ - $200,000 $ - 

Clear Creek Gravel Injection 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.

(b)(12) $ 329,600 $ - $329,600 $ -

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.

(b)(12) $ 319,515 $ - $319,515 $ -

Feather $1,124,048 $1,124,048 $150,497

Feather River Sunset Pumps Sturgeon 

and Salmon Passage (Non-Project)

Removal of Sunset Pumps Facilities and Improvements to Sutter-Butte 

Main Canal

(b)(1) $ 957,200 $ - $957,200 $ -

Nelson Slough - Feather River/Sutter 

Bypass (Non-Project)

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.

(b)(1) $ 166,848 $ - $166,848 $ 150,497

Sacramento $7,200,000 $8,000,000 $15,200,000 $10,126,800

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.

(b)(13) $800,000 $2,000,000 $2,800,000 $1,050,000

Sacramento River Salmonid Habitat 

Improvement - Keswick to Red Bluff

Implements the top priority habitat improvements along the Sacramento 

River between Keswick and Red Bluff.

(b)(13) $ 2,000,000 $2,000,000 $4,000,000 $ 1,500,000 

Sacramento River Salmonid Habitat 

Improvement - Red Bluff to Feather 

River

Implements top priority habitat improvements between Red Bluff and 

Feather River.

(b)(1) $ 2,600,000 $2,000,000 $4,600,000 $ 4,149,200 

Sacramento River – Tisdale Weir 

Sturgeon and Salmonid Passage

Reducing or eliminating opportunities for fish stranding in the stilling 

basin and Tisdale bypass.

(b)(1) $ 1,800,000 $2,000,000 $3,800,000 $3,427,600
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Stanislaus $ 800,000 $800,000 $ 300,000

Stanislaus River Salmonid Spawning 

and Rearing Habitat Restoration

Steelhead and Chinook salmon spawning and rearing habitat restoration 

project on the Stanislaus River. Gravel injected at upper river locations in 

Goodwin Canyon.

(b)(13) $ - $ 800,000 $800,000 $ 300,000 

Delta $18,465,500 $18,465,500 $6,924,563

Head of Old River Scour Hole Complete design for improvements to the Head of Old River Scour Hole 

to allow for improvement to survival rates of juvenile salmonids past 

Chips Island

(b)(4) $ - $2,500,000 $2,500,000 $ 937,500 

Rock Slough Fish Screen Improvements to Rock Slough fish screen. (b)(5) $ - $ 650,000 $ 650,000 $ 243,750

Tracy Fish Facility Improvement 

Program

Annual Tracy Fish Facility Improvement Program (TFFIP) (b)(4) $ - $727,500 $ 727,500 $ 272,813

Yolo Bypass Salmonid Habitat 

Restoration and fish passage

This is a project that stems from the 2009 NMFS Biological Opinion 

Reasonable and Prudent Alternative and it is a key action that NMFS has 

deemed necessary to allow the Coordinated Long-term Operation of the 

CVP and SWP without resulting in jeopardy of winter-run Chinook 

salmon and spring-run Chinook salmon or destruction or adverse 

modification to Critical Habitat. Also, Reclamation has recommitted to 

implementing the Yolo Bypass Salmonid Habitat Restoration and Fish 

Passage in the Reinitiation of Consultation of the Coordinated Long-term 

Operation of the CVP and SWP.

(b)(4) $ - $12,658,000 $12,658,000 $ 4,746,750 

Yolo Bypass Salmonid Habitat Rec As part of implementing the Yolo Bypass Salmonid Habitat Restoration and 

Fish Passage Project, Reclamation has adopted measures for recreation, subject 

to available appropriations, and as described in Attachment A of the Record of 

Decision. These measures are MM-REC-1 and MM-REC-3. Reclamation will 

implement mitigation that includes drainage improvement projects (MM-REC3) in the northwest portion of the YBWA, specifically the entrance and parking 

Lot A

(b)(4) $ - $1,930,000 $1,930,000 $ 723,750 

Intervention $ - $8,841,741 $8,841,741 $2,153,153

Sacramento $ - $1,600,000 $1,600,000 $ -

Battle Creek winter-run Chinook 

reintroduction and restoration project

This project furthers the introduction of winter-run Chinook into Battle 

Creek.

(b)(1) $ - $1,600,000 $1,600,000 $ -

Sacramento-San Joaquin $6,241,741 $6,241,741 $1,778,153

Delta Smelt Supplementation Studies: 

Genetics and Tagging

The purpose of this agreement is to develop a supplementation strategy 

within one year of the issuance of the [USFWS] BiOp that will describe 

the capacity needed at hatchery facilities to accommodate the Delta Smelt 

production needed to meet genetic and other hatchery consideration with 

a goal of increasing production to a number and the life stages necessary 

to effectively augment the population.

(b)(4) $ - $ 2,000,000 $2,000,000 $ 750,000
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FCCL Conservation Hatchery 

Operation for Delta Smelt Refuge 

Population Maintenance and 

Research Support

Continue maintaining a delta smelt refuge population under genetic 

management as a safeguard against species extinction in the wild. 

Conduct research with delta smelt and produce a supply of all life stages 

for research purposes.

(b)(4) $ - $2,741,741 $2,741,741 $ 1,028,153 

Use of Cultured Delta Smelt in Field 

Studies

This project would investigate the options (barges, floating vessels, net 

pens, cages, near channel facilities, etc.) and associated feasibility of using 

cultured Delta Smelt to augment and facilitate investigation of 

mechanisms impacting the Delta Smelt population and subsequent 

recovery efforts

(b)(1) Other $ - $1,500,000 $1,500,000 $ -

Delta $1,000,000 $1,000,000 $ 375,000

Facility Improvement for Delta Smelt 

Supplementation

The Tracy Aquaculture Facility will be outfitted to be able to culture 

juvenile Delta Smelt

(b)(4) $ - $1,000,000 $1,000,000 $ 375,000

Special Study $2,472,302 $14,411,310 $16,883,612 $3,775,991

Central Valley $ 507,281 $ 312,890 $ 820,171 $ -

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?

(g) $ 507,281 $ - $507,281 $ - 

Food Temperature Optimization 

Model for CVP

Develop and calibrate a salmonid habitat optimization model to inform 

CVP reservoir operations to balance water temperature and food 

resources downstream of CVP reservoirs.

(g) $ - $ 312,890 $312,890 $ -

American $180,200 $180,200 $ 67,575

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.

(b)(15) $180,200 $ - $180,200 $ 67,575 

Butte Creek $441,500 $441,500 $165,563

Butte Sink and Sutter Bypass (NonProject) - 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.

(b)(15) $441,500 $ - $441,500 $165,563 
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Sacramento $ 1,343,321 $1,343,321

Food for Fish 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.

(g) $ 1,166,288 $ - $1,166,288 $ -

Green Sturgeon Juvenile Investigation Green Sturgeon juvenile rearing habitat investigation. (g) $ 177,033 $177,033

Delta $14,098,420 $14,098,420 $3,542,853

Bay-Delta Collaborative Science and 

Adaptive Management Study 

Program with Delta Stewardship 

Council 

Collaborative for Science Adaptive Management Program (CSAMP) –

Competitive Funding Opportunity

(b)(15) $ - $3,000,000 $3,000,000 $ -

Directed Outflow Project (DOP): 

Paired Habitat Sampling

The Directed Outflow Project (DOP) is a continuing collaborative effort 

among a dozen state, federal and non-governmental groups. The DOP 

will employ a focused spatial and temporal approach to evaluate 

mechanistic hypotheses directly related to the rationales provided for the 

summer Delta outflow action and Yolo Bypass Toe Drain action to 

benefit Delta Smelt, with direct relevance to the fall outflow action. 

(b)(1) Other $ - $2,574,394 $2,574,394 $2,322,103 

Drivers of Delta Smelt Health and 

Growth

This project will investigate the health, condition, and growth, salinity, 

and thermal history from fish otoliths with direct impact to subsequent 

recovery efforts and proposed management actions. This project is 

currently a primary investigator/contributor to the Directed Outflow 

Project (DOP).

(b)(15) $ - $ 850,000 $850,000 $ 318,750 

Dual Operations Entrainment Study This 3 to 5-yr study will help determine if reservoir releases can be 

managed to boost downstream zooplankton and benthic invertebrate 

('fish food') production to offset effects of higher water temperature on 

salmonid growth and condition.

(g) $ - $2,600,000 $2,600,000 $ -

Eco Hydraulic Modeling with 

USACE

The USACE ERDC will provide technical and project management 

support to the USBR on ecohydraulics related to projects managed by the 

USBR Bay Delta Science Office. This work will include aspects 

development of project workflows and products to support ongoing 

projects related to: 1) Fremont weir notch and floodplain reconnection, 

2) Fish movement evaluation through Shasta Reservoir, 3) Fish 

occupancy of newly constructed side channels and other habitats, and 4) 

Non–physical barrier evaluation and installation (coordinated with 

CADWR)

(g) $ - $ 256,804 $256,804 $ -
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Predator Hot Spot Feasibility, Field 

Support and Analysis

The predator management project will support predation related studies 

and actions outlined in the 2019 Biological Opinion.

(b)(1) $ - $1,000,000 $1,000,000 $ 902,000

Sediment Supplementation Feasibility 

Study

Reclamation proposes to develop and implement a sediment 

supplementation feasibility study. The goal of this study will be to 

determine methods to reintroduce sediment in the Delta to increase 

turbidity which would provide better habitat conditions for all life stages 

of Delta Smelt, including increased cover for juveniles and feeding 

facilitation for larval smelt. This study will include, at minimum, 

consideration of sediment placement upstream of the Delta during low 

flow periods in the spring, summer and/or fall, followed by sediment 

remobilization following inundation during seasonal high flows. 

Reclamation will coordinate with the Service and other agencies to 

address necessary permitting for this study. Reclamation will coordinate 

with the Service on the design and findings of this study, including 

monitoring measures to assess its effectiveness and feasibility as a longterm management program, a method to phase implementation if 

required for permitting and other compliance needs.

(g) $ - $2,000,000 $2,000,000 $ -

Steelhead Lifecycle Monitoring 

Program

Upper Sacramento River and San Joaquin River O. mykiss population 

size and life-history composition census.

(g) $ - $1,817,222 $1,817,222 $ -

Refuge $31,180,257 $10,500,000 $41,680,257 $18,755,002

Level 2 $18,946,846 $1,845,840 $20,792,686 $18,755,002

Refuge L2 Conveyance Conveyance of surface water and groundwater pumping for refuges (d)(1) $ 16,880,801 $ - $16,880,801 $15,226,483 

FWS Refuge L2 Labor Program Staff Support (d)(1) $160,108 $ - $160,108 $ 144,417 

BOR Refuges L2 Labor Program Staff Support (d)(1) $315,609 $ - $315,609 $ 284,679 

East Bear Creek Pump Repair (67% 

L2)

Service agreements for O&M support services and design services for 

modifications to improve pump station performance

(d)(1)(5) $ 1,005,000 $ - $1,005,000 $ 906,510

Gray Lodge Construction (80% L2) Project implementation or contract and construction management service for 

the Level 2 portion of conveyance to Gray Lodge

(d)(1)(5) $ 195,328 $ - $195,328 $ 176,186

Pixley National Wildlife Refuge 

Feasibility Study (37% L2)

Feasibility Study to provide level 2 portion of conveyance to Pixley NWR (d)(1)(5) $ - $ 166,500 $166,500 $ 150,183

Sutter Construction (78% L2) Sutter NWR lift station construction support services for the level 2 portion of 

conveyance to Sutter National Wildlife Area

(d)(1)(5) $ 390,000 $1,679,340 $2,069,340 $ 1,866,545

Incremental Level 4 $12,233,411 $8,654,160 $20,887,571 $0

Refuge IL4 Water Acquisition Incremental level 4 water purchases and level 2 exchanges (d)(2) $8,908,000 $5,797,000 $14,705,000 $ -

Refuge IL4 Conveyance Conveyance of surface water and groundwater pumping for refuges (d)(1)(2) $ 1,198,924 $2,100,000 $3,298,924 $ -

FWS Refuge IL4 Labor Program Staff Support (d)(2) $340,089 $ - $340,089 $ -

BOR Refuges IL4 Labor Program Staff Support (d)(2) $400,086 $ - $400,086 $ -
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East Bear Creek Pump Repair (33% 

IL4)

Service agreements for O&M support services and design services for 

modifications to improve pump station performance

(d)(2)(5) $ 495,000 $ - $495,000 $ -

Gray Lodge Construction (20% IL4) Project implementation or contract and construction management service for 

the IL4 portion of conveyance to Gray Lodge

(d)(2)(5) $ 781,312 $ - $781,312 $ -

Pixley National Wildlife Refuge 

Feasibility Study (63% IL4))

Feasibility Study to provide IL4 portion of conveyance to Pixley NWR (d)(2)(5) $ - $283,500 $283,500 $ - 

Sutter Construction (22% IL4) Sutter NWR lift station construction support services for the IL4 portion of 

conveyance to Sutter National Wildlife Area

(d)(2)(5) $ 110,000 $473,660 $583,660 $ -

Independent $5,000,000 $9,991,221 $14,991,221 $11,718,010

HRP $1,500,000 $ - $1,500,000 $1,353,000

Habitat Restoration Program (HRP) Land Protection and Habitation Restoration Projects (b)(1) other $ 1,096,832 $ - $1,096,832 $ 989,342 

FWS HRP Labor Program Staff Support (b)(1) other $198,317 $ - $198,317 $ 178,882 

BOR HRP Labor Program Staff Support (b)(1) other $204,851 $ - $204,851 $ 184,775 

SJRRP $ 2,000,000 $ - $ 2,000,000 $ -

San Joaquin River Restoration 

Program

Construction of Mendota Pool bypass for flow routing and fish passage (c)(1) $ 2,000,000 $ - $2,000,000 $ -

TRRP $ 1,500,000 $9,991,221 $11,491,221 $10,365,081 

Trinity River Restoration Program Implementing the Record of Decision for the Trinity River Restoration Program 

including flows, gravel, monitoring, watershed restoration work, and related 

administration

(b)(1) Trinity $ 1,500,000 $9,991,221 $11,491,221 $10,365,081 
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Attachment 2 – Fiscal Year 2021 Annual 

Obligation Plan Charters

Gray Lodge Wildlife Area.
FY2021 CVPIA Obligation Plan - Public Draft

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Description of Charter Information

Watershed: Reference to the watershed where the project is located.

Funding Years: Fiscal years covered by the Charter.

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.

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.
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Fisheries Charters

2021 Annual Obligation Plan

CENTRAL VALLEY PROJECT IMPROVEMENT ACT

TITLE XXXIV OF PUBLIC LAW 102-575
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American River

Special Study: 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

Watershed: American River

Funding Years: 2019 - 2021

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 Justification

(b)(15) CAMP The modeling and data analysis of this project falls 

under the CAMP provision.

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. 
FY2021 CVPIA Obligation Plan - Public Draft

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Name Value Units Comment

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 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.

Project Schedule

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 Description

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
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Roles and Responsibilities

Project Sponsor:  Heather Casillas

Project Manager: Paul Cadrett, USFWS-Lodi

Project Technical Team(s):

     Name     Discipline     Contact Info    

USFWS-Lodi Paul Cadrett Biologist    209-649-0898

CBEC Chris Hammersmark Biologist    916.668.5236

Water Forum Lilly Allen Project Manager (916) 808-1997

Cramer Fish Sciences Joe Merz Biologist jmerz@fishsciences.net

USBR-BDO John Hannon Biologist 916-414-2341

     

Project Management Team:     

    

Team Position     Name     Discipline     Contact Info    

Project Sponsor     Heather Casillas     CVPIA Prgm Mgr     916-978-5360    

Narrative

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 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.

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.
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• 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.

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

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.

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

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

Management upon project completion.

All field data from juvenile rearing studies associated with Task 5 will be submitted annually to the 

Center for Data Management. Associated data 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

Cost Estimate

Year Fund Total BOR FWS State/Local 

In Kind

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

2019 S/LIK $150,000 $0 $0 $150,000

202010 CVPRF $0 $0 $0 $0

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

Total Cost: $1,485,600

10 The FY2019 funding amount of $1,155,400 included $180,200 which was the FY2020 allocated funding for this project.
FY2021 CVPIA Obligation Plan - Public Draft

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Status and Trend: 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

Watering: American River

Funding Years: 2017 - 2021

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 that CVP 

watershed.

Partners: CDFW, Pacific States Marine Fisheries Commission

Related Programs: CVPIA (b)(13), Structured Decision Making

Authority

Provision Justification

(b)(15) CAMP The data from this project is used for DSM 

calibration by the SIT. The data is also used by the 

fish agencies to track salmonid fish production 

performance measures.

Metrics

Name Value Units Comment

Estimate of juvenile 

production in this 

watershed

1 Estimate 

of 

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.

Project Schedule

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 Description

Annually Annual American River rotary screw trap report
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Roles and Responsibilities

Project Sponsor:  Heather Casillas

Project Manager: Donnie Ratcliff

Project Technical Team(s):

     Name     Discipline     Contact Info    

USFWS-Lodi Paul Cadrett Biologist    209-649-0898

     

Project Management Team:     

    

Team Position     Name     Discipline     Contact Info    

USFWS-Lodi Paul Cadrett Biologist    209-649-0898

Narrative

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

calibrate the SIT DSM and 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.

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

Risks

Risk Likelihood Impact

Low, unless funding distribution is delayed 1 2
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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

2022 CVPRF $237,750 $0 $237,750

2023 CVPRF $243,750 $0 $243,750

2024 CVPRF $249,750 $0 $249,750

2025 CVPRF $255,750 $0 $255,750

2026 CVPRF $261,750 $0 $261,750

2027 CVPRF $267,750 $0 $267,750

Total Cost: $2,648,800
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Habitat and Facility Improvement: American River Salmonid Habitat 

Restoration

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

processes on the lower American River. Annual habitat improvement projects are planned for the 

next five years.

DCN: 20BDAO015 

Watershed: American River

Funding Years: 2017 - 2022

Priority: SIT Priority: Fall Chinook – 5 American River, Improve/increase juvenile 

rearing habitat (floodplain); Winter Chinook – 3 Create/Improve juvenile 

rearing habitat in non-natal tributaries

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

CDFW, FWS

Related Programs: NMFS, AFRP, CDFW

Authority

Provision Justification

3406 (b)(13) Gravel Creates and enhances juvenile rearing 

habitat by placement of suitable sorted 

material into the river channel.

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

Project Schedule 

Date Description

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
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Roles and Responsibilities 

Project Sponsor:

Project Manager:

Project Technical Team(s):

Name Discipline Contact Info

John Hannon Fish Biologist jhannon@usbr.gov

Project Management Team:

Team Position Name Discipline Contact Info

Project Management 

Team Lead

John Hannon,

USBR

Fisheries and 

design

Phone: 916-414 2341

email: jhannon@usbr.gov

PMT Staff,

Role: Federal 

Agency

Paul Cadrett,

USFWS

Fisheries Phone: 209-334-2968

email: paul_caudrett@fws.gov

PMT Staff,

Role: Cooperative 

agreement 

recipient

Lilly Allen,

Water Forum

Project manager 

and geologist

Phone: 916-808-1997

email: 

lallen@cityosacremento.org

PMT Staff,

Role: Contractor

Chris 

Hammersmark,

CBEC

Engineering Phone: 916-668-5236

Email: 

c.hammersmark@cbecoeng.com

PMT Staff,

Role: State 

Agency

Mike Healey,

CDFW

Fisheries Phone: 

email: 

mike.healey@wildlife.ca.gov

PMT Staff,

Role: Federal 

Agency

Ruth Goodfield,

NMFS

Restoration 

coordinator

Phone: 916-930-3716

email: ruth.goodfield@noaa.gov

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. The project focus is on increasing juvenile rearing habitat on the floodplain of the American 

River, a SIT priority.

3. 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. 
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4. 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. 

5. 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.

6. Permits, within the complex permitting environment, have already been largely obtained 

through programmatic permits, so most of the funding supports on the ground restoration 

work.

7. 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.

8. Focus is habitat improvement.

9. If not implemented the successful collaboration with the diverse American River 

stakeholders would be jeopardized. Collaboration has been occurring through the Water 

Forum stakeholder meetings, Northern California Water Agency salmon plan meetings, 

American River FISH group, and American River Parkway Advisory committees. Sacrament 

Area Flood Control Agency provides approximately $100,000 cost share for the Paradise 

Beach juvenile rearing habitat project. The Water Forum contributes all of the time and 

resources their staff spends on the project.

10. No specific objections to the charter are known. Occasionally local interested parties have 

site-specific 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

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.
FY2021 CVPIA Obligation Plan - Public Draft

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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

Total Cost: $7,000,000

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

2021 Supplemental $2,000,000 $2,000,000 $0

2022 CVPRF $1,000,000 $1,000,000 $0
FY2021 CVPIA Obligation Plan - Public Draft

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Butte Creek

Special Study: 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

Watershed: Butte Creek

Funding Years: 2019 - 2023

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 Justification

(b)(15) CAMP These monitoring and evaluation tasks fall under 

the CAMP Provision

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.

Project Schedule

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

Science Coordinator, and CVPIA Fish Resource Area Coordinator.
FY2021 CVPIA Obligation Plan - Public Draft

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Date Description

Jun. 2021 Annual Report

Mar. 2023 Final Report

Jun. 2022 Annual Report

Roles and Responsibilities

Project Sponsor:  Heather Casillas

Project Manager:

Project Technical Team(s):

Name     Discipline     Contact Info    

Jim Early USFWS-RBFO 530-736-0890

Matt Brown USFWS-RBFO 530-762-1804

Derek Rupert USBR-NCAO 530-247-8514

Elissa Buttermore USBR-BDO 916-414-2416

     

Project Management Team:     

    

Team Position     Name     Discipline     Contact Info    

Project Sponsor      Heather Casillas      CVPIA Prgm Mgr      916-978-5360     

      Donnie Ratcliff USFWS 916-862-0203

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:
FY2021 CVPIA Obligation Plan - Public Draft

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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?

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

202011 CVPRF $17,925 $0 $ 17,925

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

Total Cost: $1,235,145

.11 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.
FY2021 CVPIA Obligation Plan - Public Draft

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Central Valley Wide

Real Time Operations: Central Valley Prediction and Assessment of Salmon

Description CVPAS for Central Valley Prediction and Assessment of Salmon, extends and improves 

the SacPAS real-time web database and fish forecasting tools to other river systems in the Central 

Valley.

DCN: 21BDAO001 

Watershed: Central Valley Wide

Funding Years: 2017 - 2021

Priority: High

Partners: University of Washington

Related Programs: Not applicable

Authority

Provision Justification

3406(g) Integrate models and output from water 

quality models into a web-accessible analysis 

and visualization system.

Metrics 

Not applicable.

Project Schedule 

Date Description

2018 Established web page

2019-2024 Expand linked fish models

2019-2024 Expand analysis tools

Roles and Responsibilities 

Project Sponsor: Reclamation

Project Manager: Elissa Buttermore

Project Technical Team(s):

Name Discipline Contact Info

Elissa Buttermore Fish Biologist ebuttermore@usbr.gov
FY2021 CVPIA Obligation Plan - Public Draft

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Project Management Team:

Team Position Name Discipline Contact Info

Project Management 

Team Lead

Elissa Buttermore Fish Biologist ebuttermore@usbr.gov

Narrative 

CVPAS for Central Valley Prediction and Assessment of Salmon, extends and improves the SacPAS 

real-time web database and fish forecasting tools to other river systems in the Central Valley. The 

goal is to integrate environmental/fish data, fish passage/survival models and output from water 

quality models into a web-accessible analysis and visualization system. The website provides support 

for regional integration and public access to Reclamation and ESA-mandated activities.

Data Management 

A publicly accessible web site has been established at: http://www.cbr.washington.edu/sacramento/

Risks

Risk Likelihood Impact

Not applicable

Cost Estimate

Year Fund Total BOR FWS

2021 Supplemental $1,200,000 $1,200,000 $0

2022 CalFed $410,000 $410,000 $0

2023 CalFed $390,000 $390,000 $0

Total Cost: $2,000,000
FY2021 CVPIA Obligation Plan - Public Draft

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Status and Trend Monitoring: Data & Analytic Support

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

DCN: AFRP2116

Watershed: Central Valley Wide

Funding Years: 2015 - 2023

Priority: CVIPA SIT data and analytic support

Partners: USFWS, USBR

Related Programs: CAMP

Authority

Provision Justification

3046(g) Support data and analytical needs related to the 

decision support model.

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.

Project Schedule

Date Description

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

Roles and Responsibilities 

Project Sponsor: Heather Casillas, USBR

Project Manager: Michael Beakes USBR
FY2021 CVPIA Obligation Plan - Public Draft

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Project Technical Team(s): Michael Beakes USBR, Rod Wittler USBR, Donnie Ratcliff 

USFWS, James Peterson USGS, Mike Urkov FlowWest

Name Discipline Contact Info

Michael Beakes Ph.D. Biologist mbeakes@usbr.gov

Rod Wittler Ph.D., PE rjwittler@usbr.gov

Donnie Ratcliff Fisheries donald_ratcliff@fws.gov

James Peterson Ph.D. SDM jt.peterson@oregonstate.edu

Mike Urkov Sr. Env. Planner murkov@flowwest.com

Project Management Team:

Team Position Name Discipline Contact Info

Project 

Management 

Team Lead

Michael Beakes Ph.D. Biologist mbeakes@usbr.gov

PMT Data 

Steward

Rod Wittler Ph.D., PE rjwittler@usbr.gov

PMT Data 

Steward

Donnie Ratcliff Fisheries donald_ratcliff@fws.gov

Technical Lead James Peterson Ph.D. SDM jt.peterson@oregonstate.edu

Technical Lead Mike Urkov Sr. Env. Planner murkov@flowwest.com

Narrative 

In 2008, an independent review of the anadromous fish related provisions of the Central Valley 

Project Improvement Act (CVPIA), recommended improving the science-based framework for 

decision making. The agencies jointly implementing the CVPIA, the U.S. Bureau of Reclamation 

(Reclamation) and the U.S. Fish and Wildlife Service (USFWS), selected the SDM process to address 

the recommendation and led a “Core Team” consisting of representatives from the USFWS, 

Reclamation, California Departments of Fish and Wildlife and Water Resources, and the U.S. 

National Marine Fisheries Service in developing an SDM framework as part of the Implementation 

Plan for the Fish Resource Area of the CVPIA (Implementation Plan, USFWS, 2014 Draft).

SDM provides a formal, documented, and open source process to develop quantifiable and 

measurable objectives and determine the best decision alternatives to meet those objectives using 

quantitative models. In the development of the Implementation Plan and the initial SDM 

framework, the agencies focused efforts on a limited number of decision models to represent 

potential hypotheses for how actions addressing limiting factors would improve natural production 

for Chinook salmon (of all races), steelhead, and sturgeon. The models provided reasonable results 

and a logical method for prioritizing limited resources. Sensitivity studies identified uncertainty in 

both the parameters and models where refinement could potentially improve the ability to determine 

the best decisions to maximize natural production.

The purpose of this charter is to support data and analytical needs related to SDM within the Fish 

Resource Area of the CVPIA. Support will take the form of data compiling, making data available, 

and using numerical tools to facilitate analysis of data related to fisheries performance, mitigation 
FY2021 CVPIA Obligation Plan - Public Draft

43

actions, and habitat restoration. This charter will refine and further develop the quantitative 

modeling component of the SDM through a collaborative process with agencies (State, Federal, and 

Local) and stakeholders (non-government organizations, Federal and State Water Contractors, etc.). 

The resulting products will assist to prioritize funding actions to achieve the anadromous fish 

doubling goal of the CVPIA and management objectives.

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. 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

Total Cost: $5,010,219

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

2018 WRR $434,000 $434,000 $0

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

2019 WRR $429,619 $429,619 $0

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

2020 WRR $425,436 $425,436 $0

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

2021 Supplemental $421,723 $421,723 $0

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

2022 WRR $417,548 $417,548 $0

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

2023 WRR $417,548 $417,548 $0
FY2021 CVPIA Obligation Plan - Public Draft

44

Special Study: Food Temperature Optimization Model for CVP

Develop and calibrate a salmonid habitat optimization model to inform CVP reservoir operations to 

balance water temperature and food resources downstream of CVP reservoirs.

DCN: 20BDAO028

Watershed: Central Valley Wide

Funding Years: 2020-2023

Priority: High

Partners: University of California-Davis

Related Programs: 

Authority

Provision Justification

3406(g)(4) Models Central Valley river carrying capacity

Metrics 

Name Value Units Comment

Habitat optimization 

model

1 Model Model will be used to determine if reservoir 

food exports can be managed to reduce cold 

water pool depletion.

Manuscripts 2 Manuscript Publication of results in peer-reviewed 

scientific journals

Project Schedule 

Date Description

4/2023 Complete monthly water quality sampling

4/2023 Complete benthic food web sampling

4/2023 Complete in-reservoir zooplankton sampling

4/2022 Document food web structure

4/2023 Determine salmonid growth rates

4/2023 Complete habitat optimization model

9/2023 Present results at science conference

9/2023 Submit manuscripts 

Roles and Responsibilities 

Project Sponsor: Bureau of Reclamation

Project Manager: Erwin Van Nieuwenhuyse

Project Technical Team(s): 
FY2021 CVPIA Obligation Plan - Public Draft

45

Team position Name Discipline Contact Info

Modeler-UC-Davis Francisco Bellido Leiva Modeler fjbellidoleiva@ucdavis.edu

Modeler-Reclamation Michael Beakes Fish Biologist mbeakes@usbr.gov

Project Management Team:

Team Position Name Discipline Contact Info

Project 

Management Team 

Lead-Reclamation

Erwin Van 

Nieuwenhuyse

Aquatic scientist evannieuwenhuyse@usbr.gov

Project 

Management Team 

Lead-UCD

Robert Lusardi Professional 

researcher

ralusardi@ucdavis.edu

PMT Data Steward

Narrative 

The project includes an observational and a modeling component. The observational component 

will include: (i) longitudinal profiles of water quality, nutrients, food resources (phytoplankton, 

zooplankton, organic carbon) below three CVP reservoirs; (ii) longitudinal profiles of benthic food 

web and food dynamics including estimates of benthic algae biomass, fine particulate organic matter 

and benthic macroinvertebrate abundance; (iii) sampling zooplankton in three CVP reservoirs to 

determine from where and at what times of year zooplankton are exported to downstream areas; and 

(iv) use carbon and nitrogen isotopes to determine the contribution of reservoir and in-river food 

web constituents to salmonids and other higher order consumers. The modeling component of the 

study will consist of a habitat optimization model for winter-run Chinook that considers both 

temperature (egg incubation and rearing) and food (rearing) as related to the management of 

reservoir releases (discharge timing and magnitude) below Shasta Reservoir and with consideration 

of inter-annual run timing and return of winter-run Chinook. The model will be populated using 

data from the field sampling component of the study. The model will specifically look at tradeoffs 

between cold water releases and food subsidies to the Sacramento River during critical periods (and 

over a range of water years) and optimize habitat conditions for fish while also considering water 

management constraints associated with discharge releases.

Data Management 

All data, modeling results and the optimization model code will be housed on Bay-Delta Office 

internal servers and published on the Environmental Data Initiative Data Portal.

Risks

Risk Likelihood Impact

Very low risk 1 1
FY2021 CVPIA Obligation Plan - Public Draft

46

Cost Estimate

Total Cost: $951,285

Year Funding Source Total BOR FWS State or

Local/In Kind

2020 CBD $236,657 $236,657 $0 $0

2021 CBD $65,890 $65,890 $0 $0

2021 Supplemental $247,000 $247,000 $0 $0

2022 CBD $341,341 $341,341 $0 $0

2023 CBD $60,397 $60,397 $0 $0
FY2021 CVPIA Obligation Plan - Public Draft

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Special Studies: 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 

Watershed: Central Valley Wide

Funding Years: 2018-2023

Priority: SIT Priority: Fall Chinook – 4 Adaptively manage reduction/imp. predator 

contact point

Partners: FWS, MWD, Natural Resource Scientists, NMFS, DAF Consultants,

EBMUD

Related Programs: CAMP, Interagency Ecological Program, NMFS, WIIN Act, AFRP, AFSP 

Authority

Provision Justification

3406(g)(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 habitat

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.
FY2021 CVPIA Obligation Plan - Public Draft

48

Project Schedule 

Date Description

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

Roles and Responsibilities 

Project Sponsor:

Project Manager: Cyril Michel 

Project Technical Team(s):

Name Discipline Contact Info

Dave Forkel DAF Consultants

Michelle Workman EBMUD

J.D. Wikert FWS

Mark Gard FWS

Corey Phillis MWD

Alison Collins MWD

Russell Ryan MWD

Steve Lindley NMFS

Cyril Michel NMFS

Andrew Hein NMFS

Dave Vogel Resource Scientists River Lighting PMT

Project Management Team:

Team Position Name Discipline Contact Info

Project Management 

Team Lead

Cyril Michel Fisheries Biologist NMFS

PMT Data Steward

COR/GOR Corey Phillis

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 
FY2021 CVPIA Obligation Plan - Public Draft

49

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

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 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. 
FY2021 CVPIA Obligation Plan - Public Draft

50

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. 

Data will be provided to CVPIA as GIS and/or Excel data and maintained in relational databases.

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.

J.D. Wikert (FWS) can be contacted to provide data which will be stored on the Lodi FWO server, 

and/or forwarded to the Center for Data Management when that program becomes operational.

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 

1 1
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51

Risk Likelihood Impact

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.

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

Cost Estimate

Total Cost: $4,983,817

Year Fund Total BOR FWS State/Local In 

Kind

2018 CVPRF $1,443,427 $642,733 $0 $800,694

2019 CVPRF $732,380 $703,801 $0 $28,579

2019 WRR $91,676 $91,676 $0 $0

2020 CVPRF $1,397,741 $1,342,162 $0 $55,579

2021 CVPRF $507,281 $507,281 $0 $0

2022 S/LIK $405,656 $0 $0 $405,656

2023 Unfunded $405,656 $0 $0 $405,656
FY2021 CVPIA Obligation Plan - Public Draft

52

Status and Trend Monitoring: Modeling Program

To manage, coordinate, plan and implement the CVPIA 3406(g) program.

DCN: 21FHRP005

Watershed: Central Valley Wide

Funding Years: 2015 - 2023

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, and recently WIIN act. 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, WIIN.

Authority

Provision Justification

3406 (g) These actions fall under the provision of 

Ecosystem and Water Operations Models.

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

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.

Project Schedule

Date Description

Sep. 2021 1 D Hydrodynamic Modeling

Sep. 2021 2 D Hydrodynamic Modeling

Sep. 2021 Water Quality Modeling

Sep. 2021 CalSim Modeling

Sep. 2021 SIT Fisheries Modeling Support

Sep. 2021 Temperature Modeling 

Sep. 2021 Modeling Projects Management for FY21
FY2021 CVPIA Obligation Plan - Public Draft

53

Date Description

Sep. 2021 Annual Work Plan for FY 2022

Sep. 2022 Annual Report for FY 2021

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

(presently acting Sadie Gill sgill@flowwest.com), CVPIA Science Coordinator (presently acting Mike 

Urkov, murkov@flowwest.com), and CVPIA Fish Resource Area Coordinator (Rodney Wittler

rjwittler@usbr.gov).

Roles and Responsibilities

Project Sponsor:  Heather Casillas

Project Manager: Jobaid Kabir

Project Technical Team(s):

Name   Discipline   Contact Info  

Amanda Baker USBR

Cameron Koizumi USBR 916-978-5086

Daniel Deeds USBR 916-978-4467

Derya Sumer USBR 916-979-2363

Eric Mork USBR 916-978-5296

James Lu USBR 916-978-5129

Junaid As-Salek USBR 916-978-5099

Jun Wang USBR 916-978-5189

Justin Thompson USBR 916-978-5064

Kirk Nelson USBR 916-978-5066

Michael Tansey USBR 916-978-5197

Michael Wright USBR 916-978-5009

Vanessa King USBR 916-978-2760

Zackary Leady USBR 916-978-5088

Rodney Wittler USBR 916-978-5232

Project Management Team:

Team Position   Name   Discipline   Contact Info  

Project Sponsor   Heather Casillas   CVPIA Program Mgr   916-978-5360  

Project Manager Jobaid Kabir USBR 916-978-5091

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.
FY2021 CVPIA Obligation Plan - Public Draft

54

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.

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

HEC-5Q, Temperature Regression model, Comprehensive San Joaquin Water Quality Model 

(SJRSIM ), CalSim 3.0, CalSim II, CalLite II, ECOSIM-W, Fish Mortality model, InSALMO,

Chinook salmon lifecycle Decision Support Models (DSM), C2VSIM,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,
FY2021 CVPIA Obligation Plan - Public Draft

55

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.

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 2021 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 2021 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.
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CVPIA 3406 (g) Pre- and Post-Project Monitoring Plans (as of June, 2020)

CVPIA (g) Warrants Models 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, ECOSIMW, C2VSIM and

DSM2

Completion of CalSim 3.0 hydrology 

development, resolving of surface-water 

groundwater interaction issues. QAQC 

water budget/hydrology of upstream 

operations: American River and 

Stanislaus River at the minimum, extend 

to review of Eastside streams as they are 

applicable to CVP.

Use CalSim II/3.0 inputs to identify 

CVP’s supplies and obligations and 

analyze availability of excess water for 

additional environmental or water supply 

needs.

Continue to work on CalSim 3 Tulare 

Lake representation to achieve a 

complete water budget picture to 

understand effects of SGMA on 

Reclamation’s surface water supplies.

DSM2 analysis of planning level 

scenarios were conducted and provided 

to FlowWest for further analysis.

DSM2 modeling established and 

extended for BiOps 2019 and WIIN Act 

assessments conducted from FY18 to 

present. These assessments provide a 

dynamic visualization snapshot of the 

current state of the Delta with integrated 

forecasted operations for determining 

the net effect of Delta actions on fishery 

targets.

(2) Related water quality 

conditions, including temperature 

dynamics related to storage

Complete toolkit development for the 

recent 2019 version of HEC-5Q.

DSM2 modeling proficiency for 

accessing EC is being pursued in 

partnership with DWR’s Delta Group.

(3) Surface-ground and streamwetland interactionsHydroGeoSphere

, CVHGSM 

(Central Valley 

Develop proficiency in simulating habitat 

availability using tools such as WUA, 

HEC-RAS for riverine habitats and 
FY2021 CVPIA Obligation Plan - Public Draft

57

CVPIA (g) Warrants Models Pre- and Post-Project Monitoring 

Plans

Hydro 

GeoSphere 

Model), C2VSIM

SCHISM, RMA2D for Bay-Delta 

habitats.

S&T 1867 is working on producing 

temporary floodplain mapping of the 

CVP to provide habitat acreage numbers 

as model inputs for the CVPIA’s DSM 

tools.

(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 Work with BDO in identifying best tools, 

look into replacing SALMOD.

(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. (keep this the 

same?)

(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

Work with CVO and BDO on the 

implementation of the upstream actions 

(such as Shasta spring pulse, rice decomp 

shift, Keswick winter base flows, etc.) 

proposed in the ROC on LTO. 

(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, developing 

temperature regimes using regression 

methods, and maintaining capacity to 

maintain and run R code base. 

(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. 
FY2021 CVPIA Obligation Plan - Public Draft

58

CVPIA (g) Warrants Models Pre- and Post-Project Monitoring 

Plans

(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.

Risks

Risk Likelihood Impact

Adverse Stakeholders 1 3

Insufficient Field Data 2 2

Cost Estimate

Year Fund Total BOR FWS State/Local 

In Kind

2015 CVPRF $721,529 $613,400 $108,129 $0

2015 S/LIK $944,573 $0 $0 $944,574

2016 CVPRF $606,531 $519,575 $86,953 $0

2016 S/LIK $972,911 $0 $0 $972,911

2017 CVPRF $538,720 $511,688 $27,032 $0

2017 S/LIK $793,332 $0 $0 $793,332

2018 CVPRF $600,000 $499,977 $100,023 $0

2018 S/LIK $832,999 $0 $0 $832,999

2019 CVPRF $650,000 $549,978 $100,022 $0

2019 S/LIK $832,998 $0 $0 $832,998

2020 CVPRF $700,000 $700,000 $0 $0

2020 S/LIK $832,999 $0 $0 $832,999

2021 CVPRF $700,000 $700,000 $0 $0

2021 S/LIK $832,999 $0 $0 $832,999

2022 CVPRF $700,000 $700,000 $0 $0

2022 S/LIK $832,999 $0 $0 $832,999

Total Cost: $12,092,590
FY2021 CVPIA Obligation Plan - Public Draft

59

Status and Trend Monitoring: Pacific States Marine Fisheries Commission 

Coleman-Nimbus Hatcheries

Continues the constant fractional marking program for Chinook Salmon from Coleman and 

Nimbus hatcheries. Tasks include the coded wire tagging and adipose fin clipping at the hatcheries, 

sampling the commercial and recreational catches for tagged and untagged salmon, reading tags, 

reading scales, and reporting results.

DCN: 20BDAO011 

Watershed: Central Valley Wide

Funding Years: 2021 - 2025

Priority: High

Partners: Pacific States Marine Fisheries Commission

Related Programs: Ocean Salmon Project

Authority

Provision Justification

3406 (b)(15) Project monitors natural and hatchery salmon.

Metrics 

Name Value Units Comment

Proportion of hatchery 

and natural production

0 percentage 

of fish

Determines proportion of natural and 

hatchery produced Chinook in the fisheries, 

in the spawning escapement, and returning 

to the hatcheries.

Project Schedule 

Date Description

2/28/2021 Annual constant fractional marking report, fish tagged, and catch 

sampled

3/2022 Repeats annually

3/2023

3/2024

3/2025

Roles and Responsibilities 

Project Sponsor:

Project Manager:

Project Technical Team(s):
FY2021 CVPIA Obligation Plan - Public Draft

60

Name Discipline Contact Info

John Hannon Fish Biologist jhannon@usbr.gov

Stan Allen PSMFC (503) 595-3114

Project Management Team:

Team Position Name Discipline Contact Info

Project Management Team 

Lead

PMT Data Steward

Narrative 

Continues the constant fractional marking program for Chinook Salmon from Coleman and 

Nimbus hatcheries. Tasks include the coded wire tagging and adipose fin clipping at the hatcheries, 

sampling the commercial and recreational catches for tagged and untagged salmon, reading tags, 

reading scales, and reporting results.

The program marks 25% of about 12 million Chinook from Coleman Hatchery and 25% of about 4 

million Chinook from Nimbus Hatchery. Also includes the adipose clipping of the juvenile 

steelhead (~425k fish/year) at Nimbus.

Data Management 

Constant Fractional Marking data resides in the PSMFC maintained website at 

https://www.rmpc.org/

Risks

Risk Likelihood Impact

No fishery occurs due to low numbers of salmon 1 3

Cost Estimate

Year Fund Total BOR FWS

2020 WRR $1,500,000 $1,500,000 $0

2021 WRR $99,102 $99,102 $0

2021 Supplemental $1,500,000 $1,500,000 $0

2022 WRR $1,658,867 $1,658,867 $0

2023 WRR $1,717,323 $1,717,323 $0

2024 WRR $1,778,024 $1,778,024 $0

Total Cost: $8,253,316
FY2021 CVPIA Obligation Plan - Public Draft

61

Status and Trend: Science Support to Operate Continuous Tidal Flow and 

Turbidity Stations with USGS 

Monitor Bay-Delta tidal flow, water quality and biogeochemical conditions in the Bay-Delta to 

support adaptive management of CVP operations and inform restoration activities.

DCN: 20BDAO020 

Watershed: Central Valley Wide

Funding Years: 2020-2022

Priority: High

Partners: U.S. Geological Survey (USGS)

Related Programs: Environmental Monitoring Program (D-1641)

Authority

Provision Justification

(b)(15) Operation and maintenance of a network of continuous 

monitoring stations.

Metrics

Name Value Units Comment

Continuous flow 

and water quality 

data

365 Days/year Data provide basis calibrating and validating 

hydrodynamic and water quality models and for 

evaluating effects of conservation measures and 

restoration actions. Temperature data used for 

temperature offramps. Turbidity data used for realtime operations to protect delta smelt (turbidity 

bridge)

Project Schedule 

Date Description

January 1, 2020 Start of performance period

December 31, 2020-2022 Annual metadata reports for each continuous station

August 2020-Dec 2022 Monthly inter-regional flux estimates

December 2021 Memo on fish survey review recommendations

December 31, 2022 End of performance period

Roles and Responsibilities 

Project Sponsor: Bureau of Reclamation

Project Manager: Erwin Van Nieuwenhuyse

Project Technical Team(s):
FY2021 CVPIA Obligation Plan - Public Draft

62

Team Position Name Discipline Contact Info

USGS-Flow Cathy Ruhl Hydrologist cruhl@usgs.gov

USGS-Water quality Brian Bergamaschi Biogeochemist bbergam@usgs.gov

USGS-Fish survey 

reviews

Fred Feyrer Fish biologist ffeyrer@usgs.gov

Project Management Team:

Team Position Name Discipline Contact Info

Project 

Management Team 

Lead

Erwin Van 

Nieuwenhuyse

Aquatic Scientist evannieuwenhuyse@usbr.gov

PMT Data Steward Cathy Ruhl Hydrologist cruhl@usgs.gov

Narrative

The principal objectives of this 3-year agreement are to continue operation and maintenance of a 

network of continuous monitoring stations that record tidal stage and velocity, specific conductance, 

water temperature, turbidity and other physical parameters as well as pH, dissolved oxygen, 

chlorophyll concentration, dissolved organic matter and other biogeochemical properties. Also 

included in the agreement are field sampling tasks designed to document inflow and fate of 

suspended solids. These data are used to document natural variability and responses to flow and 

non-flow conservation measures stipulated in the 2019 biological opinions on Reclamation’s longterm operation of the CVP, management actions taken under CVPIA and other initiatives. Also 

included in this agreement is task to provide technical support for an independent review of fish 

surveys conducted by the California Department of Fish and Wildlife.

Data Management

All data are posted on National Water Information System and California Data Exchange web sites 

and can be viewed on Bay-Delta Live.

Risks

Risk Likelihood Impact

Very Low Risk 1 1

Cost Estimate

Year Fund Total BOR FWS

2020 CBD $ 5,762,805 $ 5,762,805 $0

2021 CBD $ 4,106,162 $ 4,106,162 $0

2021 Supplemental $2,000,000 $2,000,000 $0

2022 CBD $ 6,289,347 $ 6,289,347 $0

Total Cost: $18,158,314
FY2021 CVPIA Obligation Plan - Public Draft

63

Clear Creek

Habitat and Facility Improvement: Clear Creek Gravel Injection

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

Watershed: Clear Creek

Funding Years: 2021 - 2025

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 Justification

(b)(12) Gravel augmentation creates spawning habitat as 

required by this section.

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). 

Project Schedule

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 Annual Project Completion Report

Dec. 2022 Annual Project Completion Report

Dec. 2023 Annual Project Completion Report

Dec. 2024 Annual Project Completion Report

Dec. 2025 Annual Project Completion Report
FY2021 CVPIA Obligation Plan - Public Draft

64

Roles and Responsibilities 

Project Sponsor: Heather Casillas

Project Manager: Derek Rupert, NCAO

Project Technical Team(s):

Team Position Name Discipline Contact Info

Project Manager Derek Rupert 

(USBR)

Fish Biologist DRupert@usbr.gov, 570-419-

2823

Team Member Paul 

Zedonis (USBR)

Division Chief PZedonis@usbr.gov

Team Member Charlie Chamberlain 

(USFWS)

Fish Biologist charles_chamberlain@fws.gov

Team Member Matt 

Brown (USFWS)

Sup. Fish 

Biologist

matt_brown@fws.gov

Team Member Mike Memeo 

(DWR)

Fish Biologist mike.memeo@water.ca.gov

Team Member Tricia Bratcher 

(CDFW)

Enviro. Scientist patricia.bratcher@wildlife.ca.gov

Project Management Team:

Team Position Name Discipline Contact Info

Project 

Management Team 

Lead

Derek Rupert Fish Biologist DRupert@usbr.gov, 570-419-

2823

PMT Data Steward Derek Rupert Fish Biologist DRupert@usbr.gov, 570-419-

2823

Project Co-lead Charlie 

Chamberlain

Fish Biologist charles_chamberlain@fws.gov

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. Clear Creek gravel augmentations are consistent with the 2019 

Biological Opinion for Reinitiation of Consultation on the Coordinated Long-Term Operation of 

the Central Valley Project and State Water Project. The gravel augmentation project provides 

spawning habitat for ESA listed Spring-run Chinook Salmon (Oncorhynchus tshawytscha) and Central 

Valley steelhead (O. mykiss), and the other anadromous fishes of Clear Creek. The gravel program is 

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).
FY2021 CVPIA Obligation Plan - Public Draft

65

From 1996 to 2019, approximately 185,000 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.

FY2021, FY2022, FY2023, FY2024, and FY2025 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 
FY2021 CVPIA Obligation Plan - Public Draft

66

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 

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
FY2021 CVPIA Obligation Plan - Public Draft

67

Cost Estimate

Year Fund Total BOR FWS

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

2022 CVPRF $339,500 $339,500 $0

2023 CVPRF $349,400 $349,400 $0

2024 CVPRF $359,300 $359,300 $0

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

2026 CVPRF $369,200 $369,200 $0

2027 CVPRF $369,200 $369,200 $0

Total Cost: $2,185,400
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68

Habitat and Facility Improvement: Clear Creek Phase 3B Completion

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

DCN: AFRP2127

Watershed: Clear Creek

Funding Years: 2019-2022

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 Justification

(b)(12) Clear Creek CVPIA PL 102-575 directs the secretary to 

direct actions under specific (b)(12). 

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 2 completion Address 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.

Project Schedule 

Date Description

FY 2019 Wetland Inventory completed.

FY 2020 Set up project management team (a CCTT sub-group) and decide on 

project priorities/goals.

FY 2021 Design 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.
FY2021 CVPIA Obligation Plan - Public Draft

69

Date Description

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 revegetation 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.

Roles and Responsibilities 

Project Sponsor: Heather Casillas

Project Manager: Derek Rupert, NCAO

Project Technical Team(s):

Team Position Name Discipline Contact Info

Project Manager Derek Rupert 

(USBR)

Fish Biologist DRupert@usbr.gov, 570-419-

2823

Team Member Paul 

Zedonis (USBR)

Division Chief PZedonis@usbr.gov

Team Member Charlie Chamberlain 

(USFWS)

Fish Biologist charles_chamberlain@fws.gov

Team Member Matt 

Brown (USFWS)

Sup. Fish 

Biologist

matt_brown@fws.gov

Team Member Mike Memeo 

(DWR)

Fish Biologist mike.memeo@water.ca.gov

Team Member Tricia Bratcher 

(CDFW)

Enviro. Scientist patricia.bratcher@wildlife.ca.gov

Team Member Leana Wiessberg 

(BLM)

Forester lweissberg@blm.gov

Project Management Team:

Team Position Name Discipline Contact Info

Project 

Management Team 

Lead

Derek Rupert Fish Biologist DRupert@usbr.gov, 570-419-

2823

PMT Data Steward Derek Rupert Fish Biologist DRupert@usbr.gov, 570-419-

2823

Project Co-lead Charlie 

Chamberlain

Fish Biologist charles_chamberlain@fws.gov
FY2021 CVPIA Obligation Plan - Public Draft

70

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 2020 

construction). 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 an 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, site 

clean-up, and poor floodplain performance.

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.
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71

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

Cost Estimate

Total Cost: $385,000

12 No funds spent in FY 18 or FY 20. This charter supersedes the previous charters.

Year Fund Total BOR FWS State/Local In 

Kind

201912 CVPRF $35,000 $35,000 $0 $0

2020 CVPRF $0 $0 $0 $0

2021 CVPRF $200,000 $200,000 $0 $0

2022 S/LIK $75,000 $0 $0 $75,000

2023 Unfunded $75,000 $0 $0 $0
FY2021 CVPIA Obligation Plan - Public Draft

72

Habitat and Facility Improvement: 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

Watershed: Clear Creek

Funding Years: 2016 - 2023

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

Partners: BLM, CDFW, DWR, FWS

Related Programs: Clear Creek Technical Task Force

Authority

Provision Justification

(b)(12) Clear Creek Restoration CVPIA PL 102-575 directs the secretary to 

direct actions under specific (b)(12). This is 

last phase that will complete the 

requirements under 3406(b)(12).

Metrics 

Name Value Units Comment

Wetland and riparian planting 

and maintenance

12.4 acres

Upland seeding and mulching 29.8 acres

Project Schedule 

Date Description

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

CCTT

Sep. 2023 Final Reports - fish, riparian, geomorphic

Roles and Responsibilities 

Project Sponsor: Heather Casillas

Project Manager: Sean Frische – CCAO FOO

Project Technical Team(s): 

Team Position Name Discipline Contact Info

Project Manager Sean Frische 

(USBR)

Civil Engineer sfrische@usbr.gov
FY2021 CVPIA Obligation Plan - Public Draft

73

Team Member Derek Rupert 

(USBR)

Fish Biologist DRupert@usbr.gov

Team Member Robert Hilldale 

(USBR)

Hydraulic 

Engineer

rhilldale@usbr.gov

Team Member Charles 

Chamberlain 

(USFWS)

Fish Biologist charles_chamberlain@fws.gov

Team Member Tricia Bratcher 

(CDFW)

Fish Biologist patricia.bratcher@wildlife.ca.gov

Team Member Doug Kleinsmith

(USBR)

Natural Res. 

Specialist

dkleinsmith@usbr.gov

Team Member Leana Weissberg 

(BLM)

Forester lweissberg@blm.gov

Project Management Team:

Team Position Name Discipline Contact Info

Project Manager Sean Frische 

(USBR)

Civil Engineer sfrische@usbr.gov

PMT Data Steward Sean Frische 

(USBR)

Civil Engineer sfrische@usbr.gov

Project Co-lead Charlie 

Chamberlain

Fish Biologist charles_chamberlain@fws.gov

Project Co-lead Derek Rupert Fish Biologist DRupert@usbr.gov

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 
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74

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. 

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. In SALMO will be utilized 

to make a model-based prediction of the production difference between existing and proposed 
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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. In SALMO and DSM results will be assessed for differences in the two 

approaches.

Risks

Risk Likelihood Impact

Cost estimate higher than expected 2 2

Cost Estimate

Total Cost: $7,569,149

Year Fund Total BOR FWS

2016 CVPRF $187,723 $187,723 $0

2017 CVPRF $4,842,358 $4,344,528 $497,830

2018 CVPRF $610,955 $510,955 $100,000

2019 CVPRF $194,741 $194,741 $0

2020 CVPRF $980,901 $980,901 $0

2021 CVPRF $319,515 $319,515 $0

2022 CVPRF $220,978 $220,978 $0

2023 CVPRF $211,978 $211,978 $0
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Delta

Special Studies: Bay-Delta Collaborative Science and Adaptive Management 

Study Program with Delta Stewardship Council 

Collaborative for Science Adaptive Management Program (CSAMP)- Competitive Funding 

Opportunity

DCN: 20BDAO027 

Watershed: Delta

Funding Years: 2020-2024

Priority: SIT knowledge gaps. Science Action Agenda implementation

Partners: Delta Stewardship Council

Related Programs: 

Authority

Provision Justification

Provision 3046 (g) This project will assist in understanding and monitoring the effects 

of fishery and water management actions in the Delta on 

Endangered Species Act (ESA)-listed species population dynamics to 

inform prevention of the extinction of listed fish species and provide 

information for use in recovery efforts.

Metrics 

Name Value Units Comment

Research 1 Metadata 

Project Schedule 

Date Description

September 2020-June 

2024

Task 1. Semiannual Meeting with Reclamation staff to identify 

status of each task.

Within 30 days of 

completion of reviews

Task 2. Delta Lead Scientist’s funding recommendations based on 

the final review panel’s evaluations.

Within 30 days of 

completion of reviews

Task 2. Final report compiling reviewer evaluations and scores.

Within 90 days of 

proposal awards

Task 3. Fact Sheets

Semiannually 2021-2024 Task 4. Reporting on subaward progress, obligations, and 

expenditures.
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Roles and Responsibilities 

Project Sponsor: USBR, DSC

Project Manager: Michael Beakes

Project Technical Team(s): Louise Conrad DSC, Dylan Stern DSC

Name Discipline Contact Info

Michael Beakes PhD - Fish Biologist mbeakes@usbr.gov

Louise Conrad Ecology Louise.Conrad@deltacouncil.ca.gov

Dylan Stern Env. Sci. Dylan.Stern@deltacouncil.ca.gov

Project Management Team:

Team Position Name Discipline Contact Info

Project 

Management 

Team Lead

Michael Beakes Ph.D. Biology mbeakes@usbr.gov

PMT Data 

Steward

Louise Conrad Ecology Louise.Conrad@deltacouncil.ca.gov

PMT Data 

Steward

Dylan Stern Env. Sci. Dylan.Stern@deltacouncil.ca.gov

Narrative 

The purpose of this Performance Work Statement (Work Statement) is to describe collaboration 

between Reclamation and the Delta Stewardship Council (COUNCIL), Delta Science Program 

(DSP), to cooperatively leverage state and federal science efforts that enhance and accelerate critical 

science related to water operations, fish management, and adaptive management in the Bay-Delta 

and Sacramento River. The Delta Science Program was established to develop scientific information 

and synthesis for the state of scientific knowledge on issues critical for managing the Bay-Delta 

system. The DSP undertook a collaborative scoping process, which Reclamation participated in, to 

define near-term science activities and described these in their Science Action Agenda (SAA). This 

process was open and transparent to ensure the recommendations were unbiased, relevant, 

authoritative, and integrated across state and federal agencies. Reclamation is a participant in the 

Delta Plan Interagency Implementation Committee (statutorily established in the Delta Reform Act 

of 2009), the Collaborative Science and Adaptive Management Program (CSAMP), several 

structured decision-making processes in the larger Bay-Delta watershed, including the Delta, and 

other collaborative science and adaptive management venues. Additionally, Reclamation is a 

participant in the Sacramento River Science Partnership, which is an agency and stakeholder 

collaborative supporting structured decision-making processes and uncertainty reduction through 

science studies in the upper Sacramento River. Using these kinds of collaborative deliberation and 

decision forums and their outputs to identify priority objectives, Reclamation will provide funding to 

the Delta Stewardship Council for coordinated services to solicit, review, and manage a number of 

near-term science studies consistent with the Science Action Agenda and Sacramento River Science 

Partnership.
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Data Management 

Data emerging from this project will be housed at BOR Bay-Delta office internal servers and with 

project partners.

Risks

Risk Likelihood Impact

Implementation 1 1

Cost Estimate

Year Fund Total BOR FWS State/Local

In Kind

2020 Supplemental $6,964,983 $3,500,000 $0 $3,464,983

2021 Supplemental $3,000,000 $3,000,000 $0 $0

Total Cost: $9,964,98
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Real Time Operations: Coordinated Enhanced Acoustic Telemetry Program

Tagging of salmonids; coordination, operation and maintenance of Central Valley acoustic telemetry 

array; six-year steelhead study; telemetry data analysis and related web tools and databases.

DCN: 20BDAO031

Watershed: Delta

Funding Years: 2018-2024

Priority: High

Partners: FWS, NMFS, DFW, UCSC, UCD, DWR, USGS, DSC

Related Programs: EATSM, SAIL, ITAG, CAT array

Authority

Provision Justification

3406 (b)(15) Fish monitoring for fish and wildlife 

resources in the Central Valley

Metrics 

Name Value Units Comment

Fish Survival %

Route entrainment %

Travel time days

Project Schedules

Date Description

October 2019 Coordinate tag-training at CNFH and organize tagging workshops

December 31, 2019 Draft Study plans (results and analyses plans).

2019 Develop mark-recapture statistical models for real- time survival and 

routing estimates

October 2020 Prepare tagging equipment for tagging of wild fish at RBDD

May 31, 2020 Final Study plans (results and analyses plans)

March 2020 Plan and implant 500 AT into LSNFH hatchery winter-run at CNFH

March 2020 Plan and implant 1,000 AT into CNFH hatchery fish at CNFH

October 2021 Prepare tagging equipment for tagging of wild fish at RBDD

March 2021 Plan and implant 500 AT into LSNFH hatchery winter-run at CNFH

November to June 

2021

Manage and tag wild fish at RBDD, provide data to ERDDAP

March 2021 Plan and implant 1,000 AT into CNFH hatchery fish at CNFH

Spring 2021 Tagging, release, fish health evaluation of six-year steelhead study 

continuation

October 2022 Prepare tagging equipment for tagging of wild fish at RBDD

December 2022 Analysis and synthesis

March 2022 Plan and implant 500 AT into LSNFH hatchery winter-run at CNFH
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Date Description

March 2023 Plan and implant 500 AT into LSNFH hatchery winter-run at CNFH

November to June 

2023

Manage and tag wild fish at RBDD, provide data to ERDDAP

Spring 2022 Tagging, release, fish health evaluation of six-year steelhead study 

continuation

Fall 2022 Data Management, Modeling Analysis for six-year steelhead study 

continuation

Spring 2023 Tagging, release, fish health evaluation of six-year steelhead study 

continuation

Fall 2023 Data Management, Modeling Analysis for six-year steelhead study 

continuation

2023 multi-state survival model

December 2023 Analysis and synthesis

Spring 2024 Tagging, release, fish health evaluation of six-year steelhead study 

continuation

Fall 2024 Data Management, Modeling Analysis for six-year steelhead study 

continuation

Spring 2025 Report, presentation for six-year steelhead study continuation

December 2017 to

August 2024

Deploy and service field monitoring acoustic telemetry stations

December 2017 to 

June 2024

Analysis and synthesis to support production and development of new 

metrics for understanding the survival, distribution, and entrainment of 

juvenile salmonid along the Sacramento River and its floodways, as well 

as, the Bay-Delta

January 2018 through 

June 2024

Implant, transport, and release acoustically tagged juvenile ESA-listed 

wild and hatchery juvenile salmonids (annually)

November to June 

2022

Manage and tag wild fish at RBDD, provide data to ERDDAP

2020 to 2024 Survival, travel time, routing predictions based on historical late fall-run 

Chinook salmon data

2020 to 2024 R Shiny Application maintenance for visualizing predictions on web 

applications

December 2024 Analysis and synthesis

2019-2024 Project management and coordination

Roles and Responsibilities 

Reclamation – Provide funding and serve as GOTR, COR, IATR.

University of California - Santa Cruz (UCSC) Principal Investigator (PI) and staff will deploy the 

receivers, collect wild fish, tag fish, enter the data and organize the receivers, equipment and gear. 

UCSC staff will also be responsible for the data analysis and assisting with reports.

USFWS will undertake several tasks as part of the six-year study. Services include (1) fish tagging, (2) 

Fish transport, (3) fish release, (4) Fish Health Evaluation, (5) Project Management, (6) Data 

Management consistent with the ITAG approach, (7) modeling and analysis, and (8) reporting. 
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The USGS (Cook, WA) will develop the statistical models used to generate real-time estimates of 

survival and migration routing. These models will be constructed to run automatically and will be 

provided to Reclamation and National Marine Fisheries Service, who will be responsible for posting

real-time updates to project websites.

The USGS has performed a number of analyses to understand how route-specific travel time,

survival, and migration routing of late-fall Chinook salmon vary in response to daily river flows.

USGS will use these existing statistical models to predict daily route-specific survival, routing, and

travel time of juvenile salmonids in the Delta given daily inflows to the Delta (Perry et al. inrevision). 

These models will be coded in the R open source computer programming language.

Predictions from these models represent our expectations based on historical data, and will provide 

a baseline against which to compare in-season estimates. Under this task, USGS will develop source 

code needed to generate predictions from the statistical models using real-time environmental data 

such as river flow of the Sacramento River at Freeport.

For visualizing output from predictive models, USGS will develop an interactive web-based

application in R known as a “Shiny App” (https://shiny.rstudio.com/). The Shiny App will provide 

a front-end dashboard for viewing model predictions. The USGS will develop the Shiny App for the 

predictive models develop in Task 2 and provide the Shiny App to Reclamation and NMFS for 

posting on project websites.

The USGS and NMFS will develop survival models that identify how continually changing

environmental conditions (e.g., tidal flows) are integrated to influence survival of fish through the 

Delta by using cumulative hazard modeling (USGS) and functional regression (NMFS). The USGS 

will extend a Bayesian survival model that jointly estimates reach-specific travel time and survival as 

a function of daily covariates at the time each individual enters a given reach (Perry et al. in revision). 

This model posits that survival and travel time depends only on the conditions when a fish enters a 

reach, not on variation in conditions during an individual’s migration through the reach. The 

extension to this model will using a cumulative hazard approach that explicitly accounts for varying 

conditions experienced by each individual over its travel time through a given reach. This approach 

will employ a piecewise constant hazard function that assumes the rate of mortality is constant given 

the environmental conditions experienced during a given time increment (either 15-minute or daily). 

NMFS will use a different technique (functional regression) to examine how time-integrated 

environmental conditions affect survival (Hein in prep).

In addition to new telemetry data collected under this agreement and under the hybrid CWT-AT

trawl efficiency study, numerous telemetry data sets from past years exist. The USGS will select the 

most appropriate telemetry data sets for retrospective analysis, given the goals outlined here.

SWFSC will manage the deployment of 139 autonomous JSATS receivers at 82 locations. SWFSC 

will manage field staff and complete management of data and delivery of data to website(s). SWFSC 

will manage and coordinated support for studies utilizing Vemco 69kHz receivers also, and this type 

of receiver will be deployed at 12 of the 82 sites. SWFSC will organize these receiver’s data and 

make them available via web application. SWFSC will provide public release of data through their 

Environmental Research Division’s Data Access Program (ERDDAP) website. SWFSC will plan 

and participate in tagging operations. SWFSC will perform the analyses, report creation, publication 
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82

writing, and presentations primarily related to juvenile salmonid survival, and perform several 

retrospective, multi-year analyses of the telemetry data collected during this project. SWFSC will test 

and manage the deployment of receivers, the data and delivery of data to their websites.

Narrative 

These monitoring efforts can provide critical information on juvenile salmonid distribution and 

survival, which inform biologists and managers interpretations of the exposure and intensity of CVP 

and SWP water operation risks on tagged populations in Central Valley rivers and the Bay- Delta. 

Understanding salmon survival and migration dynamics in the Delta and its tributaries is critical to 

the recovery of ESA-listed species, and sport and commercial fisheries management.

For example, estimating the population size of endangered Sacramento River Winter-run Chinook 

(SRWRC) as they enter and exit the Delta is considered critical for informing Delta water 

management actions (Interagency Ecological Program (IEP) SAG 2013). “The use of real-time

acoustic receivers that immediately transmit acoustic tagged (AT) fish detections needs to be 

included in the expanded network” (Johnson et al., in press). Tracking the fate of individual tagged 

fish will be accomplished with AT and used to develop estimates of survival and movement for 

other non-AT fish also part of that group. Population level sampling programs will use survival 

estimates generated by AT and applied to other mass marked (coded wire tagging) groups to 

develop improved capture efficiency for these sampling programs.

Objectives:

• Deploy and service field monitoring acoustic telemetry stations at locations important to fish 

and water management.

• Implant, transport, and release acoustically tagged juvenile ESA-listed wild and hatchery 

juvenile salmonids.

• Analysis and synthesis to support production and development of new

metrics for understanding the survival, distribution, and entrainment of juvenile salmonid 

along the Sacramento River and its floodways, as well as, the Bay-Delta.

Six-Year Steelhead Study Continuation

Reclamation’s Proposed Action for ROC on LTO Section 4.10.5.12.3 Additional Measures includes 

a San Joaquin Basin Steelhead Telemetry Study -- Continuation of the 6-Year Steelhead telemetry study 

for the migration and survival of San Joaquin Origin Central Valley Steelhead. 

This investigation involves undertaking experiments utilizing acoustically-tagged salmonids to 

confirm proportional causes of mortality due to flows, exports, and other project and non-project 

adverse effects on steelhead smelt out-migrating from the San Joaquin Basin and through the 

southern Delta. This study is to coincide with different periods of operations and focus on clipped 

hatchery steelhead (Oncorhynchus mykiss). The period of interest is between February 15 and June 15, 

which coincides with a majority of O. mykiss outmigration from the Stanislaus River and recoveries 

of steelhead smolts in the Mossdale fish monitoring efforts. This period is to include changes in 

CVP/SWP operations that include reductions in exports, reductions in reverse flows in Old and 

Middle rivers (OMR), and San Joaquin River pulse flows to assess the influence of flow and exports 

on juvenile steelhead survival.
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This study is designed to evaluate juvenile steelhead route selection at channel divergences in the 

south Delta and along the mainstem San Joaquin River, and how these behaviors influence survival 

in specific reaches and through the Delta to Chipps Island.

Data Management 

1. Web-accessible reporting status of real-time receivers.

2. Real-time data available through ERDDAP data server, updated daily

3. Web-accessible real-time receiver data available in open data format

4. Web-accessible summary database of deployment of receivers.

5. Data quality assurance of no more than 2 days of downtime before site visit to reestablish 

real time operations.

Real time data analysis and reporting will be accomplished via tag coordination with members of the

coordinated telemetry program (Tag Coordinator: Arnold Ammann, NMFS-SWFSC). This study

will be a demonstration of this program being spearheaded by the Interagency Telemetry Advisory

Group (USBR POC: Josh Israel, Elissa Buttermore, USFWS POC: Donnie Ratcliff, Bill Poytress) 

where real time visualization, forecasts, and data downloads are available

(https://calfishtrack.github.io/real-time/index.html). This will allow for data on project status, real

time detection through the Sacramento River, Delta, and Bay; and multiple estimates of Delta

survival, route entrainment, and detection probability.

Risks

Risk Likelihood Impact

COVID-19 5 8

Cost Estimate

Total Cost: $14,999,238

Year Fund Total BOR FWS

2021 WRR $580,518 $580,518 $0

2021 Supplemental $2,562,000 $2,562,000 $0

2022 CalFed $3,855,309 $3,855,309 $0

2023 CalFed $3,979,229 $3,979,229 $0

2024 CalFed $4,022,182 $4,022,182 $0
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Real Time Operations: Delta Juvenile Fish Monitoring Program

Monitor Bay-Delta fish community and other aquatic resources to support adaptive management.

DCN: 20BDAO006

Watershed: Delta

Funding Years: 2020-2022

Priority: High

Partners: U.S. Fish and Wildlife Service (USFWS)

Related Programs: Enhanced Delta Smelt Monitoring Program (EDSM)

Authority

Provision Justification

3406(b)(15) Improve fish and environmental monitoring

Metrics 

Name Value Units Comment

Trawls, beach seining ~7500 Samples/year Provide data on relative abundance, run 

timing, distribution and composition of 

juvenile salmon and other fish 

Weekly data summary 

report

52 Number/year Submitted to DOSS and other groups for 

operational decision making

Technical report 1 Report/year Report on Liberty Island fish community 

and associated habitat conditions

Newsletter articles 1 Number/year Article summarize trawl data for each year

Manuscripts 1 Number/year Manuscripts suitable for publication in 

peer-reviewed journal

Project Schedule 

Date Description

January 1, 2020 Start of performance periods

February 1, 2021 Liberty Island report

March 2022 Manuscript-synthesis 

April 2022 Report on electrofishing-beach seine task

December 31, 2022 End of performance period
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Roles and Responsibilities 

Project Sponsor: Bureau of Reclamation

Project Manager: Erwin Van Nieuwenhuyse

Project Technical Team(s):

Team Position Name Discipline Contact Info

Technical lead Brian Mahardja Fish Biologist brian_mahardja@fws.gov

Project Management Team:

Team Position Name Discipline Contact Info

Project Management 

Team LeadReclamation

Erwin Van 

Nieuwenhuyse

Aquatic scientist evannieuwenhuyse@usbr.gov

Project Management 

Team Lead-USFWS

Jeff McLain Project Leader jeffrey_mclain@fws.gov

Narrative 

The principal objectives of this 3-year agreement are threefold: (i) to continue baseline fish surveys 

in the context of a broader effort to improve fish and environmental monitoring in the Bay-Delta; 

(ii) to coordinate baseline fish survey sampling with parallel sampling activities designed to test 

alternative sampling methods and approaches; and (iii) to actively participate in efforts to improve 

and better integrate Bay-Delta fish monitoring activities for management and scientific purposes

Under this agreement, USFWS will continue to monitor the relative abundance of fish and other 

aquatic resources in the Bay-Delta. It will also conduct formal reviews of the individual activities that 

make up this monitoring program and provide expertise for synthesis efforts. The monitoring 

activities conducted under this agreement will include: (i) Kodiak and Midwater trawling for juvenile 

salmon and steelhead (Sacramento Trawl, Mossdale Trawl and Chipps Island Trawl; (ii) beach 

seining for juvenile salmonids and resident fishes; (iii) real-time monitoring to inform water 

operations (Delta Operations for Salmon and Sturgeon team); (iv) Liberty Island fish sampling; and 

(v) boat electrofishing at nearshore locations.

Data Management 

All data are posted on the USFWS Lodi Office web site.

Risks

Risk Likelihood Impact

Very low risk 1 1
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Cost Estimate

Total Cost: $10,990,499

Year Fund Total BOR FWS

2020 CBD $3,412,785 $3,412,785 $0

2021 CBD $1,410,774 $1,410,774 $0

2021 Supplemental $2,500,000 $2,500,000 $0

2022 CBD $3,666,970 $3,666,970 $0
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Special Study: Directed Outflow Project (DOP): Paired Habitat Sampling

Evaluate mechanistic hypotheses directly related to the rationales provided for the summer Delta 

outflow action and Yolo Bypass Toe Drain action to benefit Delta Smelt, with direct relevance to 

the fall outflow action. 

DCN: 20BDAO013

Watershed: Delta

Funding Years: 9/18/2018 - 6/30/2022

Priority: High

Partners: FWS, CDFW, UC Davis, ICF

Related Programs: Interagency Ecological Program

Authority

Provision Justification

3406(b)(1) Other Evaluation of Yolo Bypass Toe Drain and 

the flow outfall action delta smelt.

Metrics 

Name Value Units Comment

Outflow Alteration 

Effects Analysis

0 metadata Requests and plans for water management

actions related to augmentation of Delta 

outflow have proceeded and are expected 

to proceed in the future. 

Project Schedule 

Date Description

Feb 1 of following year Annual oral or poster presentations

Nov 15 of following year Annual DOP Technical Report

Roles and Responsibilities 

Project Sponsor: USBR

Project Manager: USBR

Project Management Team: USBR/USFWS/USGS

Project Technical Team(s): USBR/USFWS/USGS

Team Position Name Discipline Contact Info

Project Management 

Team Lead

Andrew Schultz Fish Biologist aschultz@usbr.gov

PMT Data Steward TBD

Technical Team Andrew Schultz Fish Biologist aschultz@usbr.gov
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Narrative 

The Directed Outflow Project (DOP) is a continuing collaborative effort among a dozen state, 

federal and non-governmental groups. The DOP will employ a focused spatial and temporal 

approach to evaluate mechanistic hypotheses directly related to the rationales provided for the 

summer Delta outflow action and Yolo Bypass Toe Drain action to benefit Delta Smelt, with direct 

relevance to the fall outflow action. Paired data collections (same location and time) of abiotic and 

biotic habitat constituents to test specific hypotheses will assist in avoiding prior shortcomings of 

using data collected for different studies/hypotheses and/or across variable spatial/temporal scales 

(as discussed in MAST [2015] and elsewhere). Sampling will occur during the Delta Smelt juvenile 

rearing-stage, a period known to be associated with the location of the low salinity zone (LSZ). 

Results should strengthen our understanding of the mechanisms and drivers impacting Delta Smelt 

vital rates and associated habitat features with a focus on outflow conditions. Results should assist

in evaluating the benefit and feasibility of future flow augmentation actions for managers and 

decision makers. Results from this and other related studies will inform evaluations on which 

particular outflow-related action or group of actions provides the most benefit for Delta Smelt.

Requests and plans for water management actions related to augmentation of Delta outflow have 

proceeded and are expected to proceed in the future. However, there is uncertainty and 

disagreement regarding the mechanistic relationship of Delta outflow during the rearing period to 

Delta Smelt vital rates and habitat, and the hypothesized benefit of outflow alteration for Delta 

Smelt. Delta outflow has experienced reductions in recent years, coinciding with the collapse of the 

Delta Smelt. Reduced outflow has been linked to reductions in habitat suitability in Suisun Bay and 

Marsh and movement of the LSZ to the Confluence of the Sacramento-San Joaquin River where 

little connection to shallow open water habitats exists.

The DOP’s main objective will be to evaluate the hypothesized benefit of outflow alteration for 

Delta Smelt and its habitat in coordination with all stakeholder groups. The following process and 

product related sub-objectives will facilitate progression toward this evaluation objective. 

• Test mechanistic hypotheses addressing the rationale behind outflow-based actions to 

benefit Delta Smelt.

• Concurrently sample fish and measure abiotic/biotic habitat conditions at each randomly 

selected location along the salinity and habitat gradient of the north to western Delta along 

the Sacramento River during the summer and fall. 

• Compare collected fish and habitat measures in relation to research hypotheses.

• Produce a summary report with conclusions, recommendations on outflow management, 

and recommendations for future research.

Data Management 

Data will be disseminated from collaborating DOP investigators to Reclamation and made 

stored/made available in formats consistent with federal data policies (e.g., Open Data Executive 

Order 13642). When data becomes available it will be shared with IEP for posting and additional 

storage on the Interim IEP Data and Metadata Access online portal. It will also be accessible 

through the USBR's Bay Delta Office's website under the Project, Activities, Documents web page. 

Synthesis, analysis and recommendations may occur informally through briefings and presentations 

as opposed to solely formal reports. The DOP anticipates the IEP, CSAMP and/or CAMT would 

represent the target audience for interim presentations and reports.
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Risks

Risk Type Likelihood Impact

Equipment failure Low-Mod Variable but low due to redundancies

Cost Estimate

Total Cost: $8,483,389

Year Fund Total BOR FWS

2018 WRR $1,021,128 $1,021,128 $0

2019 WRR $2,421,325 $2,421,325 $0

2020 WRR – Supplemental $2,466,542 $2,466,542 $0

2021 Supplemental $2,574,394 $2,574,394 $0
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Special Study: Drivers of Delta Smelt Health and Growth

This project will investigate the health, condition, and growth, salinity, and thermal history from fish 

otoliths with direct impact to subsequent recovery efforts and proposed management actions. This 

project is currently a primary investigator/contributor to the Directed Outflow Project (DOP).

DCN: 20BDAO005

Watershed: Delta

Funding Years: 9/16/2017 - 10/31/2022

Priority: High

Partners: UC Davis

Related Programs: NA

Authority

Provision Justification

3406(b)(15) This project’s monitoring and evaluation fall 

under the CAMP Provision.

Metrics 

Name Value Units Comment

Processed Delta Smelt 0 Number of 

fish

Process up to approximately 500 fish per 

year from Federal and state monitoring 

surveys to investigate the health, condition, 

and growth, salinity, and thermal history of 

each fish. 

Project Schedule 

Date Description

Mar. Semi-annual performance and financial report

Sep. Semi-annual performance and financial report

Roles and Responsibilities 

Project Sponsor: USBR

Project Manager: USBR

Project Management Team: USBR/USFWS/USGS

Project Technical Team(s): USBR/USFWS/USGS

Team Position Name Discipline Contact Info

Project Management 

Reclamation

Andrew Schultz Fish Biologist aschultz@usbr.gov

Project Management 

Reclamation

Swee Teh Animal Health sjteh@ucdavis.edu

PMT Data Steward TBD
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Technical Team Andrew Schultz Fish Biologist aschultz@usbr.gov

Swee Teh Animal Health sjteh@ucdavis.edu

Narrative 

Operation of the Central Valley Project (CVP) has been identified as a potential cause of reductions 

in the quantity and quality of habitat for Delta Smelt (Hypomesus transpacificus) and other native fish 

populations in the Sacramento-San Joaquin Delta-San Francisco Bay estuary (Bay-Delta). Other 

factors affecting smelt habitat include drought, contaminants and food supply. Recent studies 

indicate considerable regional variation in the prevalence of contaminant effects and food shortage 

effects as well as possible interactions with drought. Surveys, conducted by the California 

Department of Fish and Wildlife (CDFW); included the Spring Kodiak Trawl (SKT) focused on 

adults, the summer townet survey (STN) focused on early juveniles and the Fall Midwater Trawl 

(FMWT), which targets juveniles and sub-adults, as well as the USFWS Enhanced Delta Smelt 

Monitoring Program (EDSM). To evaluate the effect of CVP actions on the smelt population, it is 

essential that as much data about the health, growth, diet, movement, and reproductive and habitat 

history of captured and cultured fish be gathered. This kind of information is essential to developing 

and quantifying performance measures for the Fall and Summer outflow actions as well as to 

improving overall understanding of the factors regulating Delta Smelt production. The Recipient will 

perform measures and analyses related to the health, growth, diet, and movement, reproductive and 

habitat history of captured and cultured Delta Smelt (or a suitable surrogate) captured by surveys 

that include the EDSM, SKT, STN, FMWT and others during 2017 and 2018 as well as on 

cryogenically-preserved smelt collected by these surveys in previous years. The main objective of the 

project is to develop and quantify performance measures for the Fall and Summer outflow actions as 

well as to improving overall understanding of the factors regulating Delta Smelt production.

Data Management 

Data will be disseminated from collaborating investigators to Reclamation and made stored/made 

available in formats consistent with federal data policies (e.g., Open Data Executive Order 13642). 

When data becomes available it will be shared with IEP for posting and additional storage on the 

Interim IEP Data and Metadata Access online portal. Reporting on this data will be accessible 

through the USBR's Bay Delta Office's website under the Project, Activities, Documents web page. 

Synthesis, analysis and recommendations may occur informally through briefings and presentations 

as opposed to solely formal reports.

Risks

Risk Type Likelihood Impact

Equipment failure Low Variable but low due to redundancies and 

type of equipment
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Cost Estimate

Total Cost: $2,550,000

Year Fund Total BOR FWS

2020 CalFed $850,000 $850,000 $0

2021 CalFed $850,000 $850,000 $0

2022 CalFed $850,000 $850,000 $0
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Special Study: Eco Hydraulic Modeling with USACE

Development of project workflows and products to support ongoing projects related to: 1) Fremont 

weir notch and floodplain reconnection, 2) Fish movement evaluation through Shasta Reservoir, 3) 

Fish occupancy of newly constructed side channels and other habitats, and 4) Non–physical barrier 

evaluation and installation (coordinated with CADWR)

DCN: 21BDAO002

Watershed: Delta

Funding Years: 2019-2024

Priority: 

Partners: USACE

Related Programs: WIIN Act

Authority

Provision Justification

3406 (g) Modeling that supports CVPIA and LTO 

habitat action.

Metrics 

Name Value Units Comment

Analysis for Fish 

Movement

0 metadata The USACE ERDC will provide technical 

and project management support to the 

USBR on the subject of ecohydraulics 

related to projects managed by the USBR 

Bay Delta Science Office

Project Schedule 

Date Description

9/30/2020 Annual Report

9/30/2024 Annual Report

9/30/2021 Annual Report

9/30/2023 Annual Report

9/30/2022 Annual Report

9/30/2024 Final Report
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Roles and Responsibilities 

Project Sponsor:

Project Manager:

Project Technical Team(s):

Name Discipline Contact Info

Joshua Israel, PhD Chief, Science 

Division

U.S. Bureau of Reclamation

801 I Street, Suite 140

Sacramento, CA 95814-2536

Phone: 916-414-2405

John Hannon Fisheries Biologist U.S. Bureau of Reclamation

801 I Street, Suite 140

Sacramento, CA 95814-2536

jhannon@usbr.gov

Phone: 916-414-2413

Manny Bahia Senior Water 

Resources Engineer

DWR Division of Environmental Services

3500 Industrial Blvd #131

West Sacramento, CA 95691

Phone: 916-376-9835

Project Management Team:

Team Position Name Discipline Contact Info

Project Management 

Team Lead

PMT Data Steward

Narrative 

The USACE ERDC will provide technical and project management support to the USBR on the 

subject of ecohydraulics related to projects managed by the USBR Bay Delta Science Office. This 

work will include aspects development of project workflows and products to support ongoing 

projects including:

1. Fremont weir notch and floodplain reconnection. This project will involve participating in the 

Fisheries Engineering Technical Team and with the USBR Denver Technical Services Center to 

develop requirements for simulating fish entrainment at the Fremont Weir notch. Typical task 

include assisting with CFD model development, and running fish movement simulations (ELAM). 

The scope of the simulations and the types of behaviors simulated will be jointly decided with input 

from the FETT and others as directed by USBR. The aim of the work will be to help understand 

and refine the best notch design to maximize the notch benefits to fish.

2. Fish movement evaluation through Shasta Reservoir. This project will involve developing a 

hydrodynamics simulation of Shasta Reservoir with the USBR Technical Services Center and 

simulating juvenile salmon movement through the reservoir using a fish movement model (ELAM). 

Existing telemetry data will be used to calibrate and validate the movement model. The aim will be 
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to assist with the reintroduction of salmon above Lake Shasta. Upstream movement of adult fish as 

part of this project may also be included.

3. Fish occupancy of newly constructed side channels and other habitats. This project will involve 

using existing or developing new hydrodynamic simulations of the Sacramento River and some of 

the newly constructed or to be constructed side channels. The hydrodynamic models will be coupled 

to a habitat selection model developed on the Stanislaus River based on the ELAM. Existing fish 

habitat occupancy data will be used to guide calibration and validation of the model. The aim of the 

work will be to develop a rearing model for salmon in the Sacramento River that can be applied for 

the USBR, USACE and others.

4. Non–physical barrier evaluation and installation (coordinated with CA-DWR). This project will 

involve simulating the hydrodynamics and fish movement associated with nonphysical barriers in 

the lower Sacramento River. Significant leveraging with ongoing USACE and DWR work on this 

subject will occur.

Data Management 

Data will be housed with USACE and USBR via hard drive.

Risks

Risk Likelihood Impact

Very low risk 1 1

Cost Estimate

Total Cost: $1,338,137

Year Fund Total BOR FWS

2020 WRR $252,294 $252,294 $0

2021 WRR $256,804 $256,804 $0

2022 WRR $271,647 $271,647 $0

2023 WRR $276,315 $276,315 $0

2024 WRR $281,077 $281,077 $0
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Status and Trend: Environmental Monitoring Program with the California 

Department of Water Resources

Conduct water quality and biological monitoring at fixed stations in accordance with Water Right 

Decision D-1641.

DCN: 20BDAO008

Watershed: Delta

Funding Years: 2020-2022

Priority: High

Partners: California Department of Water Resources

Related Programs: 

Authority

Provision Justification

3406(b)(15) Conducts water quality and biological 

monitoring

Metrics 

Name Value Units Comment

Continuous water quality 

data

365 Days/year Water temperature, electrical conductivity, 

pH, dissolved oxygen, turbidity and 

fluorescence 

Monthly discrete water 

quality data

12 Months/year Suspended solids, turbidity, nutrients, 

chlorophyll concentration

Monthly biological data 12 Months/year Phytoplankton, zooplankton, clams and 

other benthic invertebrates

Project Schedule 

Date Description

January 1, 2020 Start of performance period

February 2021-2023 Annual status and trends summary reports

December 2021 EMP review completed

December 31, 2022 End of performance period

Roles and Responsibilities 

Project Sponsor: Bureau of Reclamation-California Department of Water Resources

Project Manager: Erwin Van Nieuwenhuyse

Project Technical Team(s):

Team position Name Discipline Contact Info

EMP lead Ted Flynn Biogeochemist Theodore.Flynn@water.ca.gov
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‘Project Management Team:

Team Position Name Discipline Contact Info

Project 

Management Team 

Lead-Reclamation

Erwin Van 

Nieuwenhuyse

Aquatic scientist evannieuwenhuyse@usbr.gov

Project 

Management Team 

Lead-DWR

Sarah Lesmeister Branch chief Sarah.Lesmeister@water.ca.gov

PMT Data 

Steward

Narrative 

The Environmental Monitoring Program (EMP) is a requirement of Water Right Decision D-1641 

and is designed to provide data documenting the status and trends of environmental conditions in 

the Sacramento-San Joaquin Delta and Suisun, San Pablo and North bays. The principal objectives 

of the EMP are to: (i) conduct monthly discrete water quality monitoring at 24 sites including water 

temperature, specific conductance, pH, turbidity, dissolved oxygen, alkalinity, chlorophyll 

concentration, chloride, silica, dissolved orthophosphate-P, total phosphorus, dissolved ammoniumN, dissolved nitrate-nitrite-N, organic nitrogen, and total and volatile suspended solids

concentration at 24 fixed station; (ii) conduct monthly discrete monitoring of phytoplankton density 

and taxonomic composition (15 sites), zooplankton density and taxonomic composition (22 sites), 

and benthos density and taxonomic composition (10 sites); operate nine fixed continuous water 

quality monitoring stations to document water and air temperature, solar radiation, specific 

conductance, pH, dissolved oxygen, fluorescence, and turbidity.

The EMP will involve data management, data analyses, quality assurance, quality control and 

communicate findings to stakeholders (scientists, managers, public) to further understanding of the 

estuarine ecology and provide useful information for the management and conservation of the 

upper San Francisco Estuary. 

The Recipient (DWR) will produce static and interactive annual reports on the California Estuary 

portal to meet water rights Decision D-1641 requirements. The Recipient will also produce a 3-year 

report per D-1641 requirements. The Recipient will produce oral and/or poster presentations at 

various scientific venues including, Inter-agency Ecological Program workshop, Bay-Delta Science 

Conference, and similar settings. The Recipient will produce articles for the IEP Newsletter 

summarizing status and trends observed by the EMP
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Data Management 

All data are posted on California Data Exchange Center (CDEC) and the Water Quality Monitoring 

Council web portals. They are also published via the Environmental Data Initiative (EDI) web site.

Risks

Risk Likelihood Impact

Very low risk 1 1

Cost Estimate

Total Cost: $18,000,000

Year Fund Total BOR FWS State /Local

In Kind

2020 CBD $6,000,000 $2,700,000 $0 $3,300,000

2021 CBD $6,000,000 $2,700,000 $0 $3,300,000

2022 CBD $6,000,000 $2,700,000 $0 $3,300,000
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Intervention: Facility Improvement for Delta Smelt Supplementation

The Tracy Aquaculture Facility will be outfitted to be able to culture juvenile Delta Smelt. 

DCN: 21BDAO005

Watershed: Delta

Funding Years: FY2021-TBD

Priority: TBD

Partners:

Related Programs: CASS

Authority

Provision Justification

(b)(4) Mitigate for fishery impacts associated with 

operations of the Tracy Pumping Plant.

Metrics 

Name Value Units Comment

Fish Capacity Number of 

Fish

Final number of fish and life stage is still to 

be determined.

Project Schedule 

Date Description

Jan. 2021 Tank installations

Aug. 2023 Transfer of first ~21,000 fish.

Roles and Responsibilities 

Project Sponsor:

Project Manager:

Project Technical Team(s):

Name Discipline Contact Info

Rene Reyes Supervisory Fish Biologist Tracy Fish Collection Facility

Brandon Wu Fish Biologist Tracy Fish Collection Facility

Christopher Hart Fish Biologist Tracy Fish Collection Facility
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Project Management Team:

Team Position Name Discipline Contact Info

Project Management 

Team Lead

Andrew Schultz Fish Biologist

Narrative 

The 2019 Biop calls for supplementation of 125,000 Delta Smelt by 2023 and current production 

only occurs at the UC Davis Fish Culture and Conservation Laboratory (FCCL). The FCCL has a 

capacity to hold only 50,000 adults for supplementation but could produce more if additional space 

to move later life stages off the facility became available. The Tracy Aquaculture Facility (TAF) 

within the Tracy Fish Collection Facility is located close enough to make transfers of fish feasible, 

but the special requirements for successful culture of delta smelt will require additional staffing and 

modifications to the existing infrastructure. 

The modifications would accommodate the water quality and water temperature needs of Delta 

Smelt. The TAF will be reconfigured into multiple rows of recirculating aquaculture systems. Each 

individual recirculating aquaculture system will incorporate a chilled water system for temperature 

control, a UV system for water sterilization, and appropriate filters to prevent biocontamination. In 

addition, a canopy would be installed above all outdoor tanks. Several whole system improvements 

are planned as well. The raw Delta water UV system will be installed, an emergency generator will be 

purchased and brought online, and a VFD type pump will be added to protein fractionator. Once 

installed several other repairs will be made to the AIR Sep, sump pumps, and Ozone machines

Data Management 

Transfers of fish from FCCL or LSNFH would be recorded and reported within the CASS 

supplementation program annually. A chain of custody form will document the transfer of fish 

from and to their respective agencies. The chain of custody form will contain the number of fish, 

age of fish, and all other pertinent information. While the chain of custody form will be archived, 

the data from the form will be entered into a spreadsheet or database and made available upon 

request.

Risks

Risk Likelihood Impact

Modifications not completed within anticipated 

schedule

2 1

Cost Estimate

Total Cost: $1,000,000

Year Fund Total BOR FWS

2021 Supplemental $1,000,000 $1,000,000 $0
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Status and Trend: Fish Monitoring with the California Department of Fish and 

Wildlife

Monitor Bay-Delta fish community and other aquatic resources to support adaptive management.

DCN: 20BDAO035

Watershed: Delta

Funding Years: 2020-2022

Priority: High

Partners: California Department of Fish and Wildlife

Related Programs: 

Authority

Provision Justification

3406(b)(15) Monitor Bay-Delta fish community and 

other aquatic resources to support adaptive 

management.

Metrics

Name Value Units Comment

Relative fish abundance 12 Months/year Status and trends of delta smelt and 

other fish species

Zooplankton density 12 Months/year Status and trends of zooplankton and 

other fish food organisms

Project Schedule 

Date Description

2020-202 Data are posted on CDFW web site 

(https://wildlife.ca.gov/Conservation/Delta)

September 2020 Survey Plan for Fall Mid-Water Trawl survey completed

December 2020 Survey plans for Summer Townet, 20-mm, Spring-Kodiak Trawl, 

Bay Study and Smelt Larval surveys completed

December 2020 Retrofit of the New Alosa

July 2021 Station reduction proposal

July 2021 Retrofit of the Hypomesis

July 2020-2022 Annual Spring Kodiak Trawl memo

September 2020-2022 Annual 20 mm survey index memo

September 2020-2022 Annual Summer Tow Net index memo

December 2020-2022 Annual status and trends report/article

January 2021-2022 Annual ESA 'take' reports to NMFS/USFWS

June 2021-3022 Final reports-results of fish survey reviews
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Roles and Responsibilities 

Project Sponsor: Bureau of Reclamation-California Department of Water Resources

Project Manager: Erwin Van Nieuwenhuyse

Project Technical Team(s): 

Team position Name Discipline Contact Info

Technical team lead Jim Hobbs Fish biologist James.Hobbs@wildlife.ca.gov

Project Management Team:

Team Position Name Discipline Contact Info

Project

Management Team 

Lead-Reclamation

Erwin Van 

Nieuwenhuyse

Aquatic scientist evannieuwenhuyse@usbr.gov

Project 

Management Team 

Lead-CDFW

Stephanie Fong Program Manager Sarah.Lesmeister@water.ca.gov

PMT Data 

Steward

Narrative

The principal objectives of this 3-year agreement are threefold: (i) to continue IEP baseline fish 

surveys in the context of a broader effort to improve fish and environmental monitoring in the BayDelta; (ii) to coordinate baseline fish survey sampling with parallel sampling activities designed to 

test alternative sampling methods and approaches; and (iii) to actively participate in efforts to 

improve and better integrate Bay-Delta fish monitoring activities for management and scientific 

purposes.

Under this agreement, CDFW will continue to monitor the relative abundance of fish and other 

aquatic resources in the Bay-Delta. It will also conduct formal reviews of the individual surveys that 

make up this monitoring program and provide expertise for synthesis efforts. The surveys include 

the Fall Midwater Trawl, Summer Townet, Bay Study (estuarine and marine fish, shrimp and 

zooplankton abundance and distribution), 20-mm, Smelt Larval and Spring Kodiak Trawl. Other 

activities include estimating adult sturgeon population size, juvenile salmon rotatory screw trap 

monitoring at Knight’s Landing and the Mossdale Spring Trawl.

Data Management

All data are posted on the CDFW web site: https://wildlife.ca.gov/Conservation/Delta

Risks

Risk Likelihood Impact

Very low risk 1 1
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Cost Estimate

Total Cost: $19,409,850

Year Fund Total BOR FWS State/Local In 

Kind

2020 CBD $8,220,858 $4,110,429 $0 $4,110,429

2021 CBD $8,467,484 $4,233,742 $0 $4,233,742

2022 CBD $8,721,508 $4,360,754 $0 $4,360,754
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Habitat and Facility Improvement: Head of Old River Scour Hole

Complete design for improvements to the Head of Old River Scour Hole to allow for improvement 

to survival rates of juvenile salmonids past Chips Island.

DCN: 20BDAO018

Watershed: Delta

Funding Years: 2021-2027

Priority: Medium

Partners: None

Related Programs: LTO Non-Flow Actions

Authority

Provision Justification

Sections 3406(b)(4) Mitigate for fishery impacts associated with operations of 

the Tracy Pumping Plant.

Metrics 

Name Value Units Comment

Head of Old River Scour 

Hole (HORS) 

Improvement Design

1 HORS Design This project will complete the designs 

and cost estimates for a future 

construction project that will improve the 

scour hole thereby removing an area of 

high predation of salmonids traveling up 

the San Juaquin River from traditional 

spawning grounds in the South Delta

HORS Improvement 

Construction

1 HORS 

Improvements

This project will complete a construction 

project that will improve the scour hole 

thereby removing an area of high 

predation of salmonids traveling up the 

San Juaquin River from traditional 

spawning grounds in the South Delta

Project Schedule 

Date Description

July 2021 Technical Team Membership identified

September 2021 Identification of previous studies/efforts that may be leveraged in 

the alternative development process

February 2022 Identification of alternatives

August 2022 15% Design and Cost Estimate (appraisal-level) for all alternatives

November 2022 Analysis of alternatives considering designs, cost estimates, and 

expected benefits

January 2023 30% Design and Cost Estimate of proposed action

June 2024 60% Design and Cost Estimate of proposed action
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Date Description

July 2024 Initiate the environmental compliance process for proposed action, 

and identify ESA consultation and NEPA timelines

January 2025 90% Design and Cost Estimate of proposed action

June 2025 Develop solicitation documents for the proposed action

October 2025 Select contractor(s) and begin implementation of proposed action

January 2026- Dec 2027 Proceed with construction activities

January 2028 Develop monitoring plan to understand effectiveness of the Project

Roles and Responsibilities 

Project Sponsor:

Project Manager: Colin Maloney

Project Technical Team(s):

Name Discipline Contact Info

Colin Maloney Civil Engineer cmaoney@usbr.gov

Project Management Team:

Team Position Name Discipline Contact Info

Project Management 

Team Lead

Colin Maloney, 

USBR

Civil Engineering Phone: 916-414-2442

Email: 

cmaloney@usbr.gov

PMT Data Steward

Narrative 

To prevent erosion of the northern bank of the San Juaquin River just north of the junction with the 

Old River rip rap was placed along a section of shoreline. While the rip rap successfully prevented 

the erosion of the riverbank there, it did not mediate the forces of the river around this turn and he 

San Juaquin’s River’s force scoured out the riverbed creating a large depression. 

This scour hole has been identified as an area of abnormally high predation of juvenile Steelhead 

Trout by electronic fish surveillance conducted by NMFS. The results of this work are presented in, 

“Fish Predation on a Landscape Scale” published by Michel, et al. in 2019.

The predatory fish use the depth of the scour hole to hide and ambush the juvenile Steelhead with 

success significantly higher than along the flat-bottomed areas of the San Juaquin River, as 

demonstrated in the Michel Study. It is believed that the depth of the scour hole gives introduced 

predatory fish a unique hunting ground which results in high levels of Steelhead mortality that would 

be reduced be removing this depression in the riverbed.

This scour hole is in the path of salmonids traveling up the San Juaquin River from traditional 

spawning grounds in the South Delta. At the head of the Old River a rock barrier is maintained to 

prevent the migration of Juvenile Steelhead Trout and fall-run Chinook salmonids up the Old River 

where the water would take them to the Central Valley Project (CVP) and State Water Project (SWP) 
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pumping facilities where there is a high probability these fish would become entrained. While 

juvenile Steelhead Trout have two migratory patterns. One Anadromous, where after being born in 

the freshwater of the Delta travel to the sea only to return to the Delta in order to spawn. The other 

where they spend their entire lives in the Delta. In both cases the juvenile salmonids path passes the 

scour hole where they encounter high mortality rates.

Data Management 

All data will be stored on Reclamation servers.

Risks

Risk Likelihood Impact

Project Time Overrun 1 2

Cost Estimate

Total Cost: $51,700,000

Year Fund Total BOR FWS

2021 Supplemental $2,500,000 $2,500,000 $0

2022 CalFed $1,100,000 $1,100,000 $0

2023 CalFed $1,100,000 $1,100,000 $0

2024 CalFed $12,000,000 $12,000,000 $0

2025 CalFed $12,000,000 $12,000,000 $0

2026 CalFed $12,000,000 $12,000,000 $0

2027 CalFed $11,000,000 $11,000,000 $0
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Special Study: Predator Hot Spot Feasibility, Field Support, and Analysis

The predator management project will support predation related studies and actions outlined in the 

2019 Biological Opinion. 

DCN: 21BDAO012 

Classification: Improvement

Watershed: Delta

Funding Years: 2022 – 2027

Priority: High

Partners: CDFW, DWR

Related Programs: USBR-TFCF predator removals; DWR Enhanced Predatory Fish 

Removal and Relocation Study

Project Type: Performance Monitoring

Authority

Provision Justification

3406(b)(1) other Addresses actions that support efforts to achieve 

natural production goals.

Metrics

Name Value Units Comment

Identification of predator 

hotspots throughout Delta

Presence / 

Absence

Binary by 

location

Identification of areas best suited 

for removal project(s)

Quantification of predator 

density

Density Fish/m^3 Understanding of magnitude of 

predator presence

Prediction of predator 

removal effect

Method Identification of a successful 

method to complete action(s)

Calculation of predator 

removal success

Index Measure the success of the 

undertaken action(s)

Project Schedule 

Date Description

2022 – 2023 Identify hotspots and successful predator removal action(s), 

collect and interpret data

2023 – 2024 Develop removal action predictions

2024 – 2027 Measure and observe predator removal action(s)

March, annually Semi-annual performance and financial report

September, annually Semi-annual performance and financial report

2027 Final Report
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Roles and Responsibilities 

Project Sponsor: USBR

Project Manager: USBR

Project Management Team: USBR/CDFW/DWR

Project Technical Team(s): USBR/CDFW/DWR

Project Management Team:

Team Position Name Discipline Contact Info

Project Management 

Team Lead

Suzanne Manugian Fish Biologist smanugian@usbr.gov

PMT Data Steward Suzanne Manugian Fish Biologist smanugian@usbr.gov

Technical Team Andrew Schultz Fish Biologist aschultz@usbr.gov

Technical Team Rene Reyes Supervisory TFCF Fish 

Biologist/Biological 

Resources Section

rreyes@usbr.gov

Technical Team TBD

Narrative 

The Sacramento-San Joaquin Delta (Delta) has been highly modified by human behavior (DSC 

2013; Wiens et al. 2016; Grossman 2016) including biological, physical, and chemical environmental 

changes. Native fish species (Chinook salmon, steelhead, Delta smelt, and longfin smelt) are in 

decline due to compounded effects of habitat changes and introduced predators (Grossman et al. 

2013). There is evidence both within the Delta and in other locations worldwide to support positive 

selectivity for juvenile salmonids by predators because they are energy-rich, handled easily, and may 

be potentially naïve to invasive predators (Hartman and Brandt 1995; Johnson and Martinez 2000; 

Johnson et al. 2002; Kuehne and Olden 2012; Lepak et al. 2012; Grossman et al. 2013). 

Predation occurrence can be dependent on a suite of local factors, some of which include alternative 

prey presence and density, prey size, structures in the environment, hydrology, and bathymetry. 

Localized, intense predation occurs consistently in areas referred to as hot spots (Gingras 1997; 

Michel 2010; Buchanan et al. 2013; San Joaquin River Group 2013). Within the Sacramento-San 

Joaquin Delta there are many identified hot spots such as man-made structures, scour holes, and 

bodies of deep water like forebays. There are also identified hot spots at both the State (SWP) and 

Federal (CVP) Delta pumping facilities.

Projects that fall under this Charter are consistent with Reclamation’s Final Biological Assessment 

(October 2019) and the NMFS Biological Opinion (October 2019) and will support any of the 

predation-related actions in either Biological Opinion. Outlined conservation measure actions may 

include, but are not limited to: improvements to Tracy and Skinner Delta Fish Facilities assessment 

of Lower San Joaquin River habitat for predator hot spots, and assessment of Head of Old River 

scour hole to plan localized predator reduction, and identification.

Results are expected to provide direct benefits to listed species (CCV steelhead, WR Chinook 

salmon, SR Chinook salmon, and Delta Smelt) which may include increased juvenile survival, 
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improved conditions for all life stages, and improved Delta salvage facility efficiency by reducing 

salmonid mortality.

Data Management 

Data will be stored and made available in formats consistent with state and federal data policies (e.g., 

Open Data Executive Order 13642). When data become available, they will be shared with all 

members of the project management team via a Microsoft Teams channel for joint, collaborative, 

concurrent access to data and documents. It will also be accessible through the USBR’s Bay Delta 

Office’s website under the “Project, Activities, Documents” web page. 

Risks 

Risk Likelihood Impact

Agency (State, Federal, and local) involvement 1 2

Inability to sample / take action(s) 3 3

Technical analyses complications 1 3

Schedule conflicts / complications 1 2

Cost Estimate

Year Fund Total BOR FWS

2021 Supplemental $1,000,000 $1,000,000 $0

2022 Supplemental $5,000,000 $5,000,000 $0

Total Cost: $6,000,000
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Status and Trend: Structured Decision-Making of Scientific Management in 

the Sacramento – San Joaquin Delta

The US Bureau of Reclamation (Reclamation) has a need to support the ongoing Structured 

Decision Making (SDM). 

DCN: 21BDAO004

Watershed: Delta

Funding Years: 2019-2021

Priority: Implementation of SDM for guiding BiOp actions

Partners: Delta Science Program, NMFS, CDWR, CDFW, FWS, Metropolitan Water 

District, East Bay Municipal Utility District

Related Programs: CVPIA

Authority

Provision Justification

3406 (g) Support for structured decision making and the 

decision support model.

Metrics 

Name Value Units Comment

SDM facilitation 1 metadata The study will test how to best link various 

agency management action portfolios and 

improve conditions for listed species through 

monitoring and evaluation of effects from 

Reclamation actions

Project Schedule 

Date Description

March, September Semi-annual Reports

Completion of each version of the 

SDM Model

Executive Summaries

September 30, 2021 Structured Decision-Making Management

September 30, 2021 Structured Decision-Making Team Coordination

September 30, 2021 Structured Decision-Making Communication and Outreach 

Roles and Responsibilities 

Project Sponsor: USBR

Project Manager: Michael Beakes

Project Technical Team(s): Ben Geske
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Name Discipline Contact Info

Michael Beakes Ph.D. Biologist mbeakes@usbr.gov

Ben Geske P.E. ben.geske@deltacouncil.ca.gov

Project Management Team:

Team Position Name Discipline Contact Info

Project 

Management Team 

Lead

Michael Beakes Ph.D. Biologist mbeakes@usbr.gov

PMT Data Steward Ben Geske P.E. ben.geske@deltacouncil.ca.gov

Narrative 

The US Bureau of Reclamation (Reclamation) has requested support of the ongoing Structured 

Decision Making (SDM) pilot study for the Delta Stewardship Council (Council). This Delta SDM 

pilot study is designed to assess key fishery, water, chemical, and economical drivers in the 

Sacramento-San Joaquin Delta. It is also intended to be used as a tool, by varying and diverse 

Federal and state agencies, stakeholders, and local public interests, to facilitate transparent scientific 

evaluation of alternative scenarios related to the fishery and water management actions based on the 

best available information. The pilot study will test how to best link various agency management 

action portfolios and improve conditions for listed species under the ESA. Example of efforts to 

improve conditions for ESA listed species will involve reducing predation and water quality stresses,

enhancing rearing and migrating conditions, and providing habitat to improve overall species 

survivability and fecundity. Additionally, it will be used by these varying and diverse interest to 

evaluate and prioritize investments in data collection and model refinement to narrow key 

uncertainties that would prevent evaluation of desired outcomes under various management 

scenarios. The process will incorporate a wide range of expert opinions and highlight scientific 

uncertainties. It may also establish quantifiable metrics that can guide monitoring efforts. Public 

agencies have been undertaking structured decision making to improve stakeholder engagement, 

quantification of biological risks and benefits, and improve decision making as part of CVPIA since 

2015. This project will be integrated into the broader decision support modeling and efforts to 

accelerate decisions, benefit water and fish management, and expand the specificity of these tools.

The purpose of the charter is for generating a collaborative decision support tool to inform 

prioritization of fish and water management and science investments by public agencies that is 

credible, relevant, and has broad stakeholder endorsement in the Sacramento-San Joaquin Delta 

(Delta). The Delta Science Program (DSP) (acting under the administrative umbrella of the Council) 

will be the implementing entity of this agreement. The DSP, through outreach and direct 

communication, will help improve transparency and collaboration between decision-makers, as well 

as other stakeholders in the Delta, who may contribute to and benefit from a decision-making 

framework. The DSP helps put science-based decision making as the focus of the SDM framework.

Data Management 

The Delta Science Program (DSP) will provide a tool for QA/QC of any related SDM materials as 

part of this process. The DSP will act as a liaison between all parties. Communication between 
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Reclamation and all other stakeholders will be coordinated and documented to ensure that the 

process is moving along efficiently to ensure adaptive management throughout the entire effort. An 

executive summary about the SDM process and each version of the model. A Summary Report 

about the results and key findings from each version of the model. This should also include lessons

learned, ideas for improving the process, and a recommendation to proceed to subsequent SDM 

version or not

Risks

Risk Likelihood Impact

Agency (State, Federal, and local) involvement 1 2

Cost Estimate

Total Cost: $1,160,000

Year Fund Total BOR FWS

2020 Supplemental $160,000 $160,000 $0

2021 Supplemental $1,000,000 $1,000,000 $0
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Special Study: Steelhead Lifecycle Monitoring Program

Upper Sacramento River and San Joaquin River O. mykiss population size and life-history 

composition census.

DCN: 21BDAO010

Watershed: Delta

Funding Years: 2019-2024

Priority: BA Proposed Action Chapter 4 section 4.10.5.12.3 Steelhead Conservation 

Measures 

Partners: CDFW, USGS, NMFS, FWS, Cramer Fish Sciences, FishBio

Related Programs: WIIN Act

Authority

Provision Justification

3046 (g) These actions fall under the provision of 

Ecosystem and Water Operations Models.

Metrics 

Name Value Units Comment

Progress update and 

current study results in an 

annual report

4 Number of 

reports 

Annual progress report for years 1-4

Final report on steelhead 

population status and lifehistory composition

1 Number of 

reports

Final report and recommendations in year 5

Raw data 1 NA Raw data generated from O. mykiss

monitoring and research

Project Schedule 

Date Description

2020-2021 Permitting, data collection, initial project reports

2021-2022 Data collection and reporting

2022-2023 Data collection and reporting, integration with CVPIA and Delta 

SDM 

2023-2024 Final analysis and report, integration with CVPIA and Delta SDM
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Roles and Responsibilities 

Project Sponsor: USBR

Project Manager: Michael Beakes

Project Technical Team(s): Michael Beakes USBR, Jim Peterson USGS, Steve Tsao CDFW, 

Contractor/s TBD

Name Discipline Contact Info

Michael Beakes PhD - Fish Biologist mbeakes@usbr.gov

Jim Peterson PhD – Structured Decision 

Making

jt.peterson@oregonstate.edu

Steve Tsao Fish Biologist steve.tsao@wildlife.ca.gov

Contractor/s Fish Biologists TBD

Contractor/s Fish Biologists TBD 

Project Management Team:

Team Position Name Discipline Contact Info

Project Management 

Team Lead

Michael Beakes PhD - Fish 

Biologist

mbeakes@usbr.gov

Technical Team Jim Peterson PhD – Structured 

Decision Making jt.peterson@oregonstate.edu

Technical Team Steve Tsao Fish Biologist steve.tsao@wildlife.ca.gov

Technical Team Contractor/s Fish Biologists TBD 

Technical Team Contractor/s Fish Biologists TBD 

Narrative 

California Central Valley O. mykiss are distributed throughout most watersheds but often in low 

abundance, particularly in San Joaquin tributaries (Williams et al. 2016). The species can adopt a 

broad range of life-history strategies ranging from anadromous (steelhead) to freshwater residents 

(Rainbow trout). While there is a genetic basis for life-history expression (Pearse et al. 2014), 

resident O. mykiss can produce offspring that adopt an anadromous life-history and anadromous 

steelhead can produce freshwater residents (Zimmerman et al. 2009). 

There are a variety of genetic and environmental factors that influence population dynamics and lifehistory variation in O. mykiss (Kendall et al. 2015). Past research has emphasized that growth and 

survival in freshwater, survival during migration and at sea, asymptotic sizes achievable in 

freshwater, and genetic makeup are likely key factors in determining life-history expression and 

adaptation (Satterthwaite et al. 2009, 2010, Pearse et al. 2014, Kendall et al. 2015). This charter will 

build on past research while focusing on evaluating how CVP operations impact population 

dynamics and the expression and evolution of O. mykiss life histories.

Studies emerging from this charter will address concerns of SIT members regarding the lack of 

information and high degree of uncertainty about how to enhance or encourage anadromous life 

history in steelhead by providing high-priority data and parameter estimates listed in tables 13, 16, 
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and 19 of the SIT Technical Memorandum on FY20 CVPIA Priorities. In addition, this charter will 

meet requirements outlined in Chapter 4 section 4.10.5.12.3 of the Proposed Action and 

coordinated long-term operations of the CVP and SWP by aiding the San Joaquin Basin Steelhead 

Collaborative and providing a Steelhead Life-Cycle Monitoring Program foundation. It is anticipated 

that this charter and associated studies will span five years, fill critical knowledge gaps, and generate 

testable hypotheses related to O. mykiss life-history variation and CVP operations that can be 

evaluated by the CVPIA SIT. Year one will be used to develop a full study plan, develop contracts, 

and acquire permits. Studies will be implemented, and preliminary analyses will be conducted in 

years two through four. Final analysis and management recommendations will be completed in year 

five.

Data Management 

Data from this charter’s studies will be stored on external hard drives and internal servers with the 

Bureau of Reclamation and project partners.

Risks

Risk Likelihood Impact

Non-lethal, incidental take of winter-run Chinook 2 1

Permit acquisition 1 2

Cost Estimate

Total Cost: $6,078,735

Year Fund Total BOR FWS

2020 WRR $1,340,942.72 $1,340,943 $0

2021 WRR $428,222 $428,222 $0

2021 Supplemental $1,389,000 $1,389,000 $0

2022 WRR $1,812,731 $1,812,732 $0

2023 WRR $525,013 $525,013 $0

2024 WRR $582,826 $582,826 $0
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Habitat and Facility Improvement: Tracy Fish Facility Improvement Program

Annual Tracy Fish Facility Improvement Program (TFFIP)

DCN: 21FHRP004

Classification: Research, Infrastructure Improvement

Location: 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 Justification

3406(b)(4) Develop and implement a program to mitigate for 

fishery impacts associated with operations of the 

Tracy Pumping Plant.

Metrics

Name Value Units Comment

Completion of RPAs

Project Schedule

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”)

Roles and Responsibilities 

Project Sponsor:

Project Manager: J. Carl Dealy

Project Technical Team(s):

Name Discipline Contact Info

Rene Reyes Supervisory Biologist Tracy Office

Zachery Sutphin Biologist USBR-TSC

Connie Svoboda Hydrologist USBR-TSC
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Name Discipline Contact Info

(Currently Vacant) Chief Operation & Maintenance 

Division

Tracy Office

Duane Stroup Deputy Area Manager South-Central California Area 

Office

Project Management Team

Team Position Name Discipline Contact Info

Project Management 

Team Lead

PMT Data Steward

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 

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 2021 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 FY2020-22 CO2 mathematical 

modeling and other predator control investigations. We have also established a reconnaissance team 

to explore automated fish counting.

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.
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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

No Data.

Cost Estimate

Year Fund Total BOR FWS State/Local 

In Kind

2020 WRR $710,000 $710,000 $0 $0

2020 CVPRF $426,000 $426,000 $0 $0

2021 Unfunded $463,500 $463,500 $0 $0

2021 WRR $727,500 $727,500 $0 $0

2022 S/LIK $463,500 $0 $0 $463,500

2022 WRR $772,500 $772,500 $0

2022 CVPRF $463,500 $463,500 $0

2023 CVPRF $2,910,500 $2,910,500 $0 $0

2023 Unfunded $3,374,000 $0 $0 $0

2023 S/LIK $426,000 $0 $0 $426,000

2024 CVPRF $1,895,000 $1,895,000 $0 $0

2024 S/LIK $426,000 $0 $0 $426,000

2024 Unfunded $2,321,000 $0 $0 $0

2025 CVPRF $1,895,000 $1,895,000 $0 $0

2025 Unfunded $2,321,000 $0 $0 $0

2025 S/LIK $426,000 $0 $0 $426,000

2026 CVPRF $1,895,000 $1,895,000 $0 $0

2026 Unfunded $2,321,000 $0 $0 $0

2026 S/LIK $426,000 $0 $0 $426,000

2027 CVPRF $1,895,000 $1,895,000 $0 $0

2027 Unfunded $2,321,000 $0 $0 $0

2027 S/LIK $426,000 $0 $0 $426,000

Total Cost: $29,305,000
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Habitat and Facility Improvements: Yolo Bypass Salmonid Habitat Recreation 

Mitigation

As part of implementing the Yolo Bypass Salmonid Habitat Restoration and Fish Passage Project, 

Reclamation has adopted measures for recreation, subject to available appropriations, and as 

described in Attachment A of the Record of Decision. These measures are MM-REC-1 and MMREC-3. Reclamation will implement mitigation that includes drainage improvement projects (MMREC-3) in the northwest portion of the YBWA, specifically the entrance and parking Lot A

DCN: 21BDAO006

Watershed: Delta

Funding Years: FY21 or FY22

Priority: 

Partners: California Department of Fish and Wildlife (CDFW); California Department 

of Water Resources (DWR)

Related Programs: 2019 NMFS Biological Opinion

Authority

Provision Justification

3406(b)(4) Mitigate for fishery impacts associated with 

operations of the Tracy Pumping Plant.

Metrics 

Name Value Units Comment

YBWA Parking Lot A N/A N/A Access during inundation

Project Schedule 

Date Description

Fall 2020 Planning and environmental compliance

Spring 2021 Design

2021 or 2022 Construction

Roles and Responsibilities 

Project Sponsor: USBR/DWR/CDFW

Project Manager: Ben Nelson

Project Technical Team(s):

Name Discipline Contact Info

DWR Project Manager Manny Bahia

CDFW TBD
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Narrative 

The Yolo Bypass Salmonid Habitat Restoration and Fish Passage Project contributes to the 

improvement of juvenile rearing habitat by increasing access and acreage of floodplain habitat. 

Inundation of floodplain habitat has effects to recreation in the Yolo Bypass, specifically the Yolo 

Bypass Wildlife Area (YBWA), managed by CDFW. In the ROD, Reclamation adopted measures 

for recreation, including drainage improvement projects (MM-REC-3) in the northwest portion of 

the YBWA, specifically the entrance and parking Lot A, subject to available appropriations, and up 

to a total of $2 million. 

Recreation mitigation at the YBWA could involve a financial assistance agreement with the state of 

California, through CDFW or DWR.

Data Management 

N/A

Risks

Risk Likelihood Impact

Construction timing with the overall project 1 1

Awarding agreement for construction 1 1

Cost Estimate

Total Cost: $1,980,000

Year Fund Total BOR FWS

FY21 Supplemental $1,930,000 $1,930,000 $0

FY22 CalFed $50,000 $50,000 $0
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Habitat and Facility Improvement: Yolo Bypass Salmonid Habitat Restoration 

and Fish Passage

Action under Re-initiation of Consultation of the Coordinated Long-term Operation of the CVP 

and SWP.

DCN: 20BDAO002

Watershed: Delta

Funding Years: FY19-FY25

Priority: High

Partners: California Department of Water Resources (DWR)

Related Programs: 2019 NMFS Biological Opinion

Authority

Provision Justification

3406(b)(4) Under the project, more juvenile Chinook salmon avoid interior 

Delta entrainment associated with the Tracy Pumping Plant (TPP). 

The Project would minimize impacts from the TPP and improve 

juvenile migration and survival. 

Metrics 

Name Value Units Comment

Floodplain enhancement 17,000-20,000+ Acres Increase juvenile rearing habitat

Adult fish passage - -

Juvenile migration - -

Project Schedule 

Date Description

December 10, 2018 Biological Assessment

April 29, 2019 U.S. Fish and Wildlife Service Biological Opinion

May 10, 2019 National Marine Fisheries Service Biological Opinion

June 7, 2019 Final Environmental Impact Statement/Environmental Impact 

Report

September 19, 2019 Record of Decision

May 2020 35% Design

November 2020* 60% Design

February 2021* 90% Design

April 2021* Final Design

Summer 2022* Construction

* Planned dates
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Roles and Responsibilities 

Project Sponsor: USBR/DWR

Project Manager: Ben Nelson

Project Technical Team(s):

Name Discipline Contact Info

DWR Project Manager Manny Bahia

DWR Environmental Lead Analisa Martinez

DWR Fisheries Lead Josh Martinez

Project Management Team:

Team Position Name Discipline Contact Info

Project Management 

Team Lead

PMT Data Steward

Narrative 

The Project seeks to achieve the objectives of Action I.6.1 and I. 7 as an obligation under Section 7 

of the federal Endangered Species Act, 16 U.S.C. s 1531, et seq. The California Department of 

Water Resources (DWR) and Reclamation are the lead state and federal agencies in the preparation 

of the environmental impact statement/environmental impact report (EIS/EIR) for the Project, 

which fulfills the requirements of both the California Environmental Quality Act (CEQA) and the 

National Environmental Policy Act (NEPA).

The Project contributes to the improvement of adult fish passage and juvenile rearing habitat with a 

goal of increasing populations of listed salmonids and sturgeon by improving connectivity within the 

Yolo Bypass and between the Yolo Bypass and the Sacramento River and increasing access and 

acreage of floodplain habitat. The Project will address factors limiting fish populations in the lower 

Sacramento River basin, such as food web and migratory delays and stranding.

Under the Project, more juvenile Chinook salmon would enter the Delta near Rio Vista from the 

Yolo Bypass as opposed to the Sacramento River, which will mitigate fishery impacts (ie interior 

Delta entrainment, juvenile mortality) associated with the Tracy Pumping Plant (TPP). Juvenile 

salmonids that avoid the interior Delta and the pumps have greater success on their migration out to 

the ocean. Incidental take at the pumps would be reduced and population increases would lead to 

increases in authorized take. Therefore, the Project would minimize impacts from the TPP and 

improve juvenile migration and survival relative to current conditions with fish entrained at the 

pumps.

The Reinitiation of Consultation (ROC) on L TO provides updated Endangered Species Act 

compliance for the operations of the Central Valley Project and State Water Project. One of CVP's 

major impacts on fisheries is fisheries impacts at the TPP. The TPP entrains fish, causing injury and 

mortality of out-migrating salmonid juveniles. One way that Reclamation has identified in the ROC 

on L TO to mitigate for these effects is to create additional rearing habitat in the Yolo Bypass. This 
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non-flow action to create additional rearing habitat will increase the survival of juvenile salmonids 

upstream of the TPP, so that the net population effect of the CVP operations is mitigated for. The 

Yolo Bypass Project is part of the proposed action for the ROC on LTO, which is the ESA 

consultation on operations of TPP and the rest of the CVP.

Data Management 

Reclamation will manage data in coordination with DWR.

Risks

Risk Likelihood Impact

Easement negotiations 2 2

Construction by 2022 2 2

Cost Estimate

Total Cost: $152,000,000

Year Fund Total BOR FWS State/Local 

In Kind

2019 Supplemental 

WRR/CalFed

$34,498,502 $34,498,502 $0 $0

2020 Supplemental 

WRR/CalFed

$6,578,460 $6,578,460 $0 $0

2021 WRR $288,000 $288,000 $0 $0

2021 CalFed $7,400,000 $7,400,000 $0 $0

2021 Supplemental $4,970,000 $4,970,000 $0 $0

2022 State Cost Share $10,000,000 $0 $0 $10,000,000

2022 CalFed $5,000,000 $5,000,000 $0 $0

2022 Unfunded $4,000,000 $4,000,000 $0 $0

2023 State Cost Share $15,000,000 $0 $0 $15,000,000

2023 CalFed $5,000,000 $5,000,000 $0 $0

2023 Unfunded $1,000,000 $1,000,000 $0 $0

2024 State Cost Share $31,000,000 $0 $0 $31,000,000

2024 CalFed $723,038 $723,038 $0 $0

2025 State Cost Share $10,000,000 $0 $0 $10,000,000

2026 State Cost Share $10,000,000 $0 $0 $10,000,000
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Feather River

Habitat and Facility: Feather River: Sunset Pumps Sturgeon and Salmon 

Passage

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

DCN: AFRP2104

Watershed: Feather River

Funding Years: 2019 - 2024

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 Justification

(b)(1) This project addresses anadromous fish population goal

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.

Project Schedule

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 Description

Dec. 2020 Feasibility Study; Design Plans

Dec. 2020 Annual Reports

Dec. 2021 Permits; Monitoring Reports

Dec. 2023 Initial Construction Actions
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Roles and Responsibilities

Project Sponsor: Heather Casillas

Project Manager:

Project Technical Team(s):

Name    Discipline    Contact Info   

Paul Cadrett USFWS 209-334-2968

Amanda Ott CDWR

Lynn Phillips SEWD

Colin Purdy CDFW

Tracy McReynolds CDFW

Tanya Sheva CDFW

Ruth Goodfield NMFS

   

Project Management Team:    

   

Team Position   Name    Discipline    Contact Info   

Project Sponsor    Heather Casillas    CVPIA Prgm Mgr    916-978-5360   

Rod Wittler USBR-CVPIA 916-262-3670

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.
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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.

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 
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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

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
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Cost Estimate

Year Fund Total BOR FWS State/Local 

In Kind

2019 CVPRF $2,138,000 $0 $2,138,000 $0

2019 S/LIK $95,000 $0 $0 $95,000

202013 CVPRF $0 $0 $0 $0

2020 S/LIK $95,000 $0 $0 $95,000

2021 CVPRF $957,200 $0 $957,200 $0

2021 S/LIK $95,000 $0 $0 $95,000

2022 S/LIK $6,000,000 $0 $0 $6,000,000

2023 S/LIK $6,000,000 $0 $0 $6,000,000

2024 S/LIK $6,000,000 $0 $0 $6,000,000

Total Cost: $21,380,200

13 The FY2019 funding amount of $2,138,000 included $957,200, which was the FY2020 allocated 

funding for this project.
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Habitat and Facility Improvement: Nelson Slough - 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

Watershed: Feather River

Funding Years: 2020 - 2023

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 Justification 

(b)(1) Improves natural production (rearing) of 

anadromous fish in Central Valley rivers.

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 Description

Dec. 2021 Nelson Slough Salmonid Floodplain Habitat Improvement Feasibility Study
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Roles and Responsibilities

Project Sponsor: Heather Casillas

Project Manager:

Project Technical Team(s):

   Name   Discipline   Contact Info  

Paul Cadrett USFWS

Tanya Shea CDFW

Jason Kindopp DWR

  

Project Management Team:   

  

Team Position   Name   Discipline   Contact Info  

Project Sponsor   Heather Casillas   CVPIA Prgm Mgr   916-978-5360  

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.
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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

Risks

Risk Likelihood Impact

Land Ownership, Permission and Access 1 1

Cost Estimate

Year Fund Total BOR FWS State/Local In 

Kind

2020 CVPRF $265,000 $0 $265,000 $0

2021 CVPRF $166,848 $0 $166,848 $0

2022 S/LIK $2,120,000 $0 $0 $2,120,000

2023 Unfunded $2,120,000 $0 $0 $2,120,000

Total Cost: $4,671,848
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Sacramento River

Intervention: Battle Creek Winter-Run Chinook Reintroduction and 

Restoration Project

This project furthers the introduction of winter-run Chinook into Battle Creek.

DCN: 21BDAO007 

Watershed: Sacramento River

Funding Years: 2021 - 2031

Priority: Medium

Partners: USFWS, CDFW, NMFS

Related Programs: CVPIA

Authority

Provision Justification

3406 (b)(1)

Metrics

Name Value Units Comment

Adult winter-run 500 number of 

fish

Initial goal for returning adults.

Project Schedule 

Date Description

10/30/2021 First year accomplishment report

Roles and Responsibilities 

Project Sponsor: USBR

Project Manager: John Hannon

Project Technical Team(s): Winter-run Chinook reintroduction team

Name Discipline Contact Info

John Hannon Fish Biologist jhannon@usbr.gov
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Project Management Team:

Team Position Name Discipline Contact Info

Project Management 

Team Lead

John Hannon Fish Biologist jhannon@usbr.gov

PMT Data Steward John Hannon Fish Biologist jhannon@usbr.gov

Narrative

The project furthers the reintroduction of winter-run Chinook into Battle Creek in furtherance of 

the recovery plan goal of providing winter-run Chinook spawning populations in additional 

locations. The LTO PA states that Reclamation will provide $1.4 million per year over 10 years to 

accelerate reintroduction on winter-run and the Battle Creek restoration project. Acceleration 

actions will be developed within the reintroduction team. The goal of this project is to accelerate 

progress towards establishing a self-sustaining population of winter-run Chinook in Battle Creek. 

The work under this charter should complement ongoing actions to restore Battle Creek and 

reintroduce winter-run.

See Battle Creek LTO non-flow action charter for more detail if needed.

Data Management

USBR Bay Delta Office, USFWS Red Bluff Office, and then CVPIA data repository when that is 

developed.

Risks

Risk Likelihood Impact

Battle Creek water not cool enough for winter-run eggs 2 2

Hydropower facility modifications not completed 2 2

Cost Estimate

Total Cost: $6,400,000

Year Fund Total BOR FWS

2021 WRR $100,000 $100,000 $0

2021 Supplemental $1,500,000 $1,500,000 $0

2022 WRR $1,600,000 $1,600,000 $0

2023 WRR $1,600,000 $1,600,000 $0

2024 WRR $1,600,000 $1,600,000 $0
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Real Time Operations: Coded Wire Tags for Late-Fall Run Chinook Salmon 

Spring-Run Surrogate Tagging Program

Annually purchase coded-wire tags for insertion into Coleman hatchery late-fall run Chinook salmon 

to serve as surrogates for spring-run Chinook salmon.

DCN: 21BDAO008

Watershed: Sacramento River

Funding Years: 2020-2024

Priority: High

Partners: U.S. Fish and Wildlife Service

Related Programs: N/A

Authority

Provision Justification

3406(b)(15) Monitoring of hatchery generated fishes.

Metrics 

Name Value Units Comment

Decimal coded wire tags 1.12 Million Agency code 05 (FWS) 

Project Schedule 

Date Description

4/1/2020 Tags delivered to Coleman National Fish Hatchery

4/1/2021 Tags delivered to Coleman National Fish Hatchery

4/1/2022 Tags delivered to Coleman National Fish Hatchery

4/1/2023 Tags delivered to Coleman National Fish Hatchery

4/1/2024 Tags delivered to Coleman National Fish Hatchery

Roles and Responsibilities 

Project Sponsor: Bureau of Reclamation

Project Manager: Erwin Van Nieuwenhuyse

Project Technical Team(s): N/A

Team position Name Discipline Contact Info
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Project Management Team:

Team Position Name Discipline Contact Info

Project 

Management Team 

Lead-Reclamation

Erwin Van 

Nieuwenhuyse

Aquatic scientist evannieuwenhuyse@usbr.gov

Project 

Management Team 

Lead-FWS

Kevin Niemela Program manager kevin_niemela@fws.gov

PMT Data Steward

Narrative 

Reclamation operates the Central Valley Project (CVP), which includes a pumping facility and a fish 

collection facility in the southern Sacramento-San Joaquin Delta. Operation of the pumping plant is 

conditioned in part by a biological opinion issued by the National Marine Fisheries Service to 

protect listed salmonid populations. Among the listed populations are wild spring run Chinook 

salmon produced in tributaries of the Sacramento River. There is an annual program in place to tag 

and mark late-fall hatchery fish that are used as surrogates for spring run salmon. Capture of these 

surrogate fish at the fish collection facilities acts as a trigger for pumping restrictions. 

Data Management 

All data, modeling results and the optimization model code will be housed on Bay-Delta Office 

internal servers and published on the Environmental Data Initiative Data Portal.

Risks

Risk Likelihood Impact

Very low risk 1 1

Cost Estimate

Year Fund Total BOR FWS

2020 CBD $103,040 $103,040 $0

2021 CBD $103,040 $103,040 $0

2022 CBD $103,040 $103,040 $0

2023 CBD $103,040 $103,040 $0

2024 CBD $103,040 $103,040 $0

Total Cost: $515,200
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Special Studies: Food for Fish - 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

Watershed: Sacramento River

Funding Years: 2019-2021

Priority: 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 Justification

3406 (g) DSM Sub-module

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 

Volume floodplain water exported (AF) * 

zooplankton biomass density (grams dry 

carbon) = trophic subsidy delivered to 

augment in-river food webs.
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Name Value Units Comment

floodplain 

water 

exported

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. 

Project Schedule 

Date Description

Year 1: FY 2019

Jan. 2020 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.

Sept. 2020 Annual technical documentation report describing monitoring 

results for the flood up-drain event(s). 

Feb. 2020 Proposal to SIT for incorporation of results into DSM.

Year 2-3: FY 2020-2021

December 31, 2022 Science Integration Team (SIT) coordination and monitoring 

integration with other CVPIA and valley-wide research and 

monitoring programs.

September 30, 2020 Complete remaining monitoring sample processing and data analysis.

December 31, 2020 2019/20 Annual Technical Report preparation.

December 31, 2020 2020/21 field season preparation - experimental design and planning, 

contracting and coordination with water/ag partners, procurements, 

field site preparation, etc. 

April 15, 2021 20/21 field study implementation – landscape scale 

flooding/monitoring, floodplain lab study and long-term data 

collection.

September 30, 2021 2020/21 monitoring sample processing, and data analysis.

December 31, 2021 2020/2021 Annual Technical Report preparation from Pilot field 

work.

December 31, 2021 2021/22 field season preparation - experimental design and planning, 

contracting and coordination with water/ag partners, procurements, 

field site preparation, etc.

April 15, 2022 2021/22 field study implementation – landscape scale 

flooding/monitoring, floodplain lab study and long-term data 

collection.

September 30, 2022 2021/22 monitoring sample processing and data analysis 
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Date Description

December 31, 2022 2021/2022 Annual Technical Report preparation.

December 31, 2022 Final report preparations, invoicing and project close out. 

December 31, 2021 2020/2021 Annual Technical Report preparation from Pilot field 

work.

Roles and Responsibilities 

Project Leader: Jacob Katz, CalTrout

Project Manager: Ian Smith, USBR; Jacob Katz, CalTrout

Project Technical Team(s):

Name Discipline Contact Info

David Guy NCWA

Rod Wittler USBR

Josh Israel USBR

Donnie Ratcliff USFWS

Paul Butner CRC

Jon Rubin Westlands

Griffin Hill SLDMWA

Ted Sommer DWR

Kris Tjernell DWR

Brian Ellrott NMFS

Jeff McCreary DU

Collin Purdy CDFW

Carson Jeffres UC Davis

Andrew Ryppel UC Davis

Alison Collins MWD

Chuck Hanson SWC

Project Management Team:

Team Position Name Discipline Contact Info

Project Management 

Team Lead

Jacob Katz Fisheries Biologist CalTrout

Project Management 

Team Lead

Ian Smith Fisheries Biologist USBR

PMT Data Steward Jacob Montgomery Fisheries Biologist Cal Trout

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.
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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 

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 
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140

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.

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.
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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 

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. 
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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. Hatcheryorigin 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 

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 
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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.

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
FY2021 CVPIA Obligation Plan - Public Draft

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(Sommer et al. 2001b, Miller-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 

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 
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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 

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. 

1 2
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Cost Estimate

Total Cost: $3,562,427

Year Fund Total BOR FWS State/Local In 

Kind

2019 CVPRF $997,775 $881,973 $0 $0

2019 S/LIK $0 $0 $0 $115,802

2020 CVPRF $1,186,140 $1,083,775 $0 $0

2020 S/LIK $0 $0 $0 $102,365

2021 CVPRF $1,378,512 $1,166,288 $0 $0

2021 S/LIK $0 $0 $0 $212,224
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Special Studies: Green Sturgeon Juvenile Investigation

Green Sturgeon Juvenile Rearing Habitat Investigation

DCN: AFRP2118

Watershed: Sacramento River

Funding Years: 2018 - 2021

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 Justification

3406(g) This research meets the Ecosystem and Water System 

Operations Models of this provision.

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.

Project Schedule

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 Description

Sep. 2019 Annual Report

Sep. 2020 Annual Report

Roles and Responsibilities

Project Sponsor:  Heather Casillas

Project Manager:

Project Technical Team(s):

Name    Discipline    Contact Info   

Josh Gruber USFWS-RBFO
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Name    Discipline    Contact Info   

Matt Brown USFWS-RBFO

Bill Poytress USFWS-RBFO

Derek Rupert USBR-NCAO

    

Project Management Team:    

   

Team Position    Name    Discipline    Contact Info   

Project Sponsor    Heather Casillas    CVPIA Prgm Mgr    916-978-5360   

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:
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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 

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 
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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/

Risks

Risk Likelihood Impact

Attaining research permits 1 1

Cost Estimate

Year Fund Total BOR FWS State/Local 

In Kind

2018 CVPRF $147,832 $0 $147,832 $0

2019 CVPRF $348,645 $0 $348,645 $0

202014 CVPRF $0 $0 $0 $0

2021 CVPRF $177,033 $0 $177,033 $0

2021 S/LIK $212,224 $0 $0 $212,224

Total Cost: $885,734

14 The FY2019 funding amount of $348,645 included $174,823, which was the FY2020 allocated funding for this project
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Real Time Operations: Red Bluff Diversion Dam Rotary Screw Traps

Juvenile salmonid production monitoring in the Sacramento River at Red Bluff, Clear Creek adult 

and juvenile monitoring, and Battle Creek adult and juvenile monitoring. 2009 Biological Opinion 

actions carried over into 2019 LTO PA

DCN: 20BDAO023

Watershed: Sacramento River

Funding Years: 06/02/2020 – 05/31/2025

Priority: High

Partners: USFWS

Related Programs: NMFS-BO, LTO PA

Authority

Provision Justification

(b)(15) CAMP The data is used to track salmonid fish production.

Metrics 

Name Value Units Comment

Report from each activity 8 of 

them

report Annual update reports and regular inseason updates for Red Bluff RST and 

winter-run carcass survey

Project Schedule 

Date Description

Annual The escapement and juvenile production monitoring activities occur 

annually and repeat annually

Roles and Responsibilities 

Project Sponsor:

Project Manager:

Project Technical Team(s): see below

Name Discipline Contact Info

John Hannon Fish Biologist jhannon@usbr.gov

Matt Brown

Charlie Chamberlain

Jim Earley

Kevin Niemala
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Project Management Team: Same as above

Team Position Name Discipline Contact Info

Project Management 

Team Lead

PMT Data Steward

Narrative 

The juvenile production monitoring at Red Bluff is used to determine when ESA listed species are 

migrating down the Sacramento River, helps set the winter-run take level for the Delta pumps each 

year, and determines the effectiveness of operations at Shasta at maintaining salmonid survival in the 

upper Sac River. The Clear Creek monitoring helps determine effectiveness of water operations in 

Clear Creek/Whiskeytown and of Clear Creek restoration actions. Battle Creek monitoring helps 

with evaluation of Battle Creek restoration project and Coleman Hatchery operations.

River and Task

Task Project Title 

Sacramento River

Activity 01 Red Bluff Diversion Dam Site Rotary-Screw Trap Juvenile Production Monitoring

Activity 02 Upper Sacramento River Winter Chinook Salmon Carcass Escapement Survey

Clear Creek

Activity 03 Operation of Segregation Weir in Clear Creek

Activity 04 Adult Spring Chinook Escapement Monitoring in Clear Creek

Activity 05 Juvenile Spring-run and Steelhead Production Monitoring in Clear Creek (RST’s)

Activity 06 Adult Steelhead and Late-fall Chinook Escapement Monitoring in Clear Creek

Battle Creek

Activity 07 Juvenile Production Monitoring in Battle Creek (RST’s)

Activity 08 Adult Salmonid Escapement Monitoring in Battle Creek

Data Management 

USFWS Red Bluff Field Office maintains the data.

Risks

Risk Likelihood Impact

Insufficient staffing to complete activities 1 3
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Cost Estimate:

Total Cost: $13,943,200

Year Fund Total BOR FWS

2020 WRR $3,311,786 $3,311,786 $0

2021 WRR $10,168 $10,168 $0

2021 Supplemental $3,420,000 $3,420,000 $0

2022 WRR $3,557,693 $3,557,693 $0

2023 WRR $3,643,553 $3,643,553 $0
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Real Time Operations: Sacramento River Basin Salmonid Monitoring with 

Pacific States

Conduct annual Chinook Salmon spawning escapement surveys in the Sacramento River Basin 

(mainstem, Deer Creek, Antelope Creek, Mill Creek, Clear Creek, Battle Creek, Cottonwood Creek, 

Cow Creek, Bear Creek, and American River) to estimate the abundance and distribution of 

Chinook salmon spawners. Conduct effectiveness monitoring of salmonid habitat improvement 

projects in the Sacramento River basin.

DCN: 20BDAO025

Watershed: Sacramento River

Funding Years: 2021 - 2025

Priority: Priority Comment: The monitoring activities of this agreement are part of the 

Reasonable and Prudent Actions (RPA) described by National Marine 

Fisheries Service in the biological opinion (BiOp) on long-term operations of 

the CVP and California State Water Project (SWP). To maintain CVP 

operations, Reclamation must ensure these activities occur in order to 

comply with the Endangered Species Act.

Partners: Pacific States Marine Fisheries Commission

Related Programs: NMFS-RPAs

Authority

Provision Justification

(b)(15) CAMP This project conducts effectiveness 

monitoring of salmonid habitat 

improvement projects.

Metrics 

Name Value Units Comment

Spawner Abundance 0 Number of 

fish

The primary objective of this project is to 

continue to determine the annual 

abundance and distribution of adult 

Chinook salmon returning to spawn in the 

Sacramento River Basin and to assess 

effectiveness of restoration actions.

Project Schedule 

Date Description

3/31/2021 Semi-Annual Performance Report and Financial Report

9/30/2021 Annual Survey Reports

9/30/2021 Semi-Annual Performance Report and Financial Report

Above cycle repeats annually
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Roles and Responsibilities 

Project Sponsor:

Project Manager:

Project Technical Team(s):

Name Discipline Contact Info

John Hannon Fish Biologist jhannon@usbr.gov

Project Management Team:

John Hannon

Stan Allen

Team Position Name Discipline Contact Info

Project Management 

Team Lead

PMT Data Steward

Narrative 

The monitoring activities of this agreement are part of the Reasonable and Prudent Actions (RPA) 

described by National Marine Fisheries Service in the biological opinion (BiOp) on long-term 

operations of the CVP and California State Water Project (SWP). To maintain CVP operations, 

Reclamation must ensure these activities occur in order to comply with the Endangered Species Act 

and carried the activities over into the project description of the 2019 BA.

The primary objective of this project is to continue to determine the annual abundance and 

distribution of adult Chinook salmon returning to spawn in the Sacramento River Basin and to 

assess effectiveness of restoration actions. The escapement surveys for winter-run and spring-run 

Chinook in the Sacramento River, Clear Creek, Mill Creek, Deer Creek, and Battle Creek is included 

in the Proposed Action for the 2019 water operations BA. The restoration effectiveness monitoring 

task is a CVPIA funded activity.

Data Management 

Data emerging from this project will be housed at the USBR Bay-Delta Office internal servers and 

uploaded to CalFish (https://www.calfish.org/)

Risks

Risk Likelihood Impact

Covid makes field work difficult 1 2

Staff unavailable 1 3
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Cost Estimate

Total Cost: $6,024,000

Year Fund Total BOR FWS

2020 WRR $1,150,000 $1,150,000 $0

2021 Supplemental $2,294,000 $2,294,000 $0

2022 WRR $1,280,000 $1,280,000 $0

2023 WRR $1,300,000 $1,300,000 $0
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Habitat and Facility Improvement: 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

Location: Sacramento River 

Funding Years: 2017 - 2021

Priority: SIT FY2018 Tech Memo: Winter Chinook – Upper Sacramento River above 

temperature control points, increase spawning habitat

Partners: Chico State Enterprises, ACID, Glenn Colusa Irrigation District, Sacramento

River Forum

Related Programs: CVPIA (b)(13), Structured Decision Making

Authority

Provision Justification

(b)(13) Develop and implement a continuing program for 

the purpose of restoring and replenishing, as 

needed, spawning gravel lost due to the 

construction and operation of Central Valley 

Project dams, bank protection projects, and other 

actions that have reduced the availability of 

spawning gravel and rearing habitat in the Upper 

Sacramento River from Keswick Dam to Red Bluff 

Diversion Dam.

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
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Project Schedule

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 Description

Sep. 2018 Injected and placed gravel

Sep. 2019 Injected and placed gravel

Sep. 2020 Injected and placed gravel

Sep. 2021 Injected and placed gravel

Sep. 2022 Injected and placed gravel

Roles and Responsibilities

Project Sponsor:  Heather Casillas

Project Manager: John Hannon

Project Technical Team(s):

     Name     Discipline     Contact Info    

Project Lead John Hannon Biologist 916-206-4187

     

Project Management Team:     

    

Team Position     Name     Discipline     Contact Info    

Jim Early Biologist USFWS – Red Bluff

Paul Zedonis Biologist USBR – NCAO

Ruth Goodfield Biologist NMFS - SWSC

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 = 20,000 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.
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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 

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 started 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 2022 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.
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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

Cost Estimate

Year Fund Total BOR FWS

2018 CVPRF $800,000 $800,000 $0

2019 CVPRF $015 $0 $0

2020 CVPRF $1,600,000 $1,600,000 $0

2021 CVPRF $800,000 $800,000 $0

2021 Supplemental $2,000,000 $2,000,000 $0

2022 CVPRF $5,935,550 $5,935,550 $0

Total Cost: $11,135,550

15 FY2019 AWP allocation of $800,000 was unable to be obligated in FY2019 so funding was shifted to FY2020
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Habitat and Facility Improvement: Sacramento River Tisdale Weir Sturgeon 

and Salmonid Passage

Reducing or eliminating opportunities for fish stranding in the stilling basin and Tisdale bypass.

DCN: AFRP2106

Watershed: Sacramento River

Funding Years: 2019 - 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 Justification

(b)(1) This action addresses adverse environmental 

impacts by reducing the stranding of fish.

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

Project Schedule

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
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Roles and Responsibilities 

Project Sponsor: Heather Casillas

Project Manager: 

Project Technical Team(s): 

Name Discipline Contact Info

Lead Fish Biologist Derek Rupert USBR-NCAO 530-247-8514

Jim Early USFWS-RBFO

Project Management Team: 

Team Position Name Discipline Contact Info

Project Sponsor Heather Casillas CVPIA Prgm Mgr 916-978-5360

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.
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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.'

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
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Cost Estimate

Year Fund Total BOR FWS State/Local 

In Kind

2019 CVPRF $1,510,000 $0 $1,510,000 $0

2019 S/LIK $2,140,000 $0 $0 $2,140,000

202016 CVPRF $0 $0 $0 $0

2020 S/LIK $5,000,000 $0 $0 $5,000,000

2021 CVPRF $1,800,000 $0 $1,800,000 $0

2021 Supplemental $2,000,000 $0 $2,000,000 $0

2022 CVPRF $2,000,000 $0 $2,000,000 $0

Total Cost: $14,450,000

16 The FY2019 funding amount of $1,510,000 included $1,060,000, which was the FY2020 allocated funding for this 

project.
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Habitat and Facility Improvement: 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

Watershed: Sacramento River

Funding Years: 2019 – 2025 

Priority: SIT FY2020 Tech Memo

Partners: City of Anderson, CA, City of Red Bluff, City of Redding, CSU Chico, 

Glenn Colusa Irrigation District, CDFW, CDWR, 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

Related Programs:

Authority

Provision Justification

3406 (b)(13) Gravel Projects are side channel enhancement and 

creation and floodplain expansion.

Metrics 

Name Value Units Comment

Shea Adult Chinook 1105 Number of 

fish

Territory estimates consistent with SIT 

salmon lifecycle model inputs

Shea Juvenile Chinook 189800 Number of 

fish

Territory estimates consistent with SIT 

salmon lifecycle model inputs

Kapusta 1B Juvenile 

Chinook

81561 Number of 

fish

Territory estimates consistent with SIT 

salmon lifecycle model inputs

Kapusta Island Juvenile 

Chinook

130827 Number of 

fish

Territory estimates consistent with SIT 

salmon lifecycle model inputs

Battle Creek Levee 

Juvenile Chinook

112500 Number of 

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

331710 Number of 

fish

Territory estimates consistent with SIT 

salmon lifecycle model inputs

Reading Island Phase II 386380 Number of 

fish

Territory estimates consistent with SIT 

salmon lifecycle model inputs

South Cypress Juvenile 

Chinook

386250 Number of 

fish

Territory estimates consistent with SIT 

salmon lifecycle model inputs
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Name Value Units Comment

South Cypress Adult 

Chinook

1287 Number of 

fish

Territory estimates consistent with SIT 

salmon lifecycle model inputs

East Sand Slough Juvenile 

Chinook

532500 Number of 

fish

Territory estimates consistent with SIT 

salmon lifecycle model inputs

Project Schedule 

Date Description

5/15/2020 12:00:00 AM Anderson River Park completed

5/15/2020 12:00:00 AM South Cypress side channel completed if USBR approves bridge

5/15/2020 12:00:00 AM Reading Island side channel completed

5/15/2021 12:00:00 AM Shea Side Channel completed

5/15/2021 12:00:00 AM East Sand Slough completed

5/15/2022 12:00:00 AM Kapusta sites completed

Roles and Responsibilities 

Project Sponsor:

Project Manager:

Project Technical Team(s):

Name Discipline Contact Info

John Hannon Fish Biologist jhannon@usbr.gov

Jim Earley

Mike Berry

Project Management Team:

Team Position Name Discipline Contact Info

Project Management 

Team Lead

PMT Data Steward

Narrative 

1. 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.

2. Addresses these SIT priorities:

a. Increase perennially inundated juvenile habitat, Sacramento River above the 

American River confluence;

b. Increase seasonally inundated juvenile habitat at 2 yr freq, Sacramento River above 

American River confluence.
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3. Detailed descriptions of the projects including the specific types of proposed management 

actions. Chinook potential from territory estimates consistent with SIT salmon lifecycle 

model inputs 

Top Priority

Site Cost Est Type Rearing 

acres

Spawning 

acres

Total 

Juveniles

Adult 

Chinook

Shea Island $2,660,000 side channel 2.5 1.7 189,800 1,105

Kapusta 1B $575,000 side channel 1.1 81,561

Kapusta Isand $1,000,000 side channel 1.7 130,827

Battle Creek 

Levee

$796,800 floodplain 15.0 1,125,000

Anderson RP 

Ph 1-3

$1,781,900 side channel 4.4 331,710

Reading Island 

Ph

$721,584 side channel 5.2 386,380

South Cypres $1,522,640 side channel 1.4 1.4 105,068 910

East Sand 

Slough

$1,484,000 side channel 7.1 532,500

Tier 2

Site Type Rearing 

acres

Spawning 

acres

Total 

Juveniles

Adult 

Chinook

Wyndham connecting 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

Site Type Rearing 

acres

Spawning 

acres

Total 

Juveniles

Adult 

Chinook

Cow Creek side channel 1.17 88,122

China Garden side channel 1.13 84,732

Battle Creek floodplain 50.00 3,750,000

Jellys Ferry side channel 2.26 169,465

4. What biological objectives and specific performance metrics (at the Central Valley and/or 

watershed scale) does the project proposal address? What local (within-watershed) 

performance metrics do the project proposals address? Adds new juvenile rearing habitat in 

the Upper Sacramento River to increase productivity and ultimately increase adult 

production. 

5. Prediction of project outcome (Quantitative temporal prediction of expected project 

outcome. Best if made in terms of means objectives, i.e. short-term objective specific 

monitoring measures physical/biological response to management action.). See the potential 

fish number in number 2. 
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6. How the project proposal is cost-effective relative to its complexity, regulatory environment, 

and potential ecological and community benefits. Are the proposed costs substantiated? 

Does the majority of funding support on-the-ground restoration? All the funding goes 

towards the high priority projects selected by the upper Sacramento River Restoration 

Interagency Advisory Technical Group. Prioritized based on biological benefit, engineering 

feasibility, and cost effectiveness.

7. How does the project proposal fit within the ARM process and DSM model? What 

fundamental objective does it contribute to? (Peterson, Coarse Resolution Model Report, 

2014) What means objective(s) does the project proposal implement/test? (Peterson, Coarse 

Resolution Model Report, 2014). Increases Chinook production based on DSM priority 

actions.

8. If the project proposal is focused primarily on science or monitoring, how will the results 

inform the DSMs or reduce uncertainty in decision-making? N/A

9. What are the impacts of not doing the project proposal? Explain collaboration with or 

among stakeholders and agency partners in development and/or implementation of this 

project proposal. Interagency group and stakeholders have been working on these projects 

over past four years. Impact would be loss in momentum and reduced potential to double 

anadromous fish production.

10. Are there stakeholder objections to the project proposal as described? If so, what are these 

and how are they addressed? None I’m aware of.

Data Management 

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

Total Cost: $15,050,000

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

2021 Supplemental $2,000,000 $2,000,000 $0

2022 CVPRF $5,935,550 $5,935,550 $0
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Habitat and Facility Improvement: Sacramento River Salmonid Habitat 

Improvement – Red Bluff to Feather River

Implements top priority habitat improvements between Red Bluff and Feather River.

DCN: 20FHRP005 

Watershed: Sacramento River 

Funding Years: 10/01/2019 12:00 AM – 9/30/2024 12:00 AM

Priority: High

Partners: City of Red Bluff, CSU Chico, Glenn Colusa Irrigation District, CDFW, 

CDWR, Golden Gate Salmon Association, Pacific States Marine Fisheries 

Commission, RD 108, River Garden Farms, River Partners, Sacramento 

River Forum, Trout Unlimited

Related Programs: CDWR, NMFS

Authority

Provision Justification

3406 (b)(1) AFRP

Metrics

Name Value Units Comment

La Barranca juvenile 

Chinook

350839 Number of 

fish

Territory estimates consistent with SIT 

salmon lifecycle model inputs

McClure juvenile Chinook 250808 Number of 

fish

Territory estimates consistent with SIT 

salmon lifecycle model inputs

Foster juvenile Chinook 196579 Number of 

fish

Territory estimates consistent with SIT 

salmon lifecycle model inputs

Mooney juvenile Chinook 59313 Number of 

fish

Territory estimates consistent with SIT 

salmon lifecycle model inputs

Blethen juvenile Chinook 194322 Number of 

fish

Territory estimates consistent with SIT 

salmon lifecycle model inputs

Altube juvenile Chinook 111847 Number of 

fish

Territory estimates consistent with SIT 

salmon lifecycle model inputs

Flynn juvenile Chinook 67786 Number of 

fish

Territory estimates consistent with SIT 

salmon lifecycle model inputs

Blackberry juvenile 

Chinook

176243 Number of 

fish

Territory estimates consistent with SIT 

salmon lifecycle model inputs

Oklahoma juvenile 

Chinook

128183 Number of 

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.
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Project Schedule 

Date Description

10/1/2021 12:00 AM First site permitted and ready to construct

3/1/2022 12:00 AM Additional sites depend on level of funding allocated

3/1/2022 12:00 AM First site constructed

Roles and Responsibilities 

Project Sponsor:

Project Manager:

Project Technical Team(s):

Name Discipline Contact Info

John Hannon Fish Biologist jhannon@usbr.gov

Jim Early

Mike Berry

Project Management Team:

Team Position Name Discipline Contact Info

Project Management 

Team Lead

PMT Data Steward

Narrative

1. Salmon habitat improvement projects in the middle SIT reach of Sacramento River – Red 

Bluff to Feather River. Types are side channel habitat improvement and creation, floodplain 

expansion, and rock revetment removal.

2. Addresses these SIT priorities:

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.

3. Detailed descriptions of the projects including the specific types of proposed management 

actions. 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 

opportunity arises. Projections of fish numbers are territory estimates consistent with SIT 

salmon lifecycle model inputs.
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Tier 1

Project Rearing acres Juvenile

Mooney 0.79 59,313

Blethen Island 2.59 194,342

Blackberry Island 2.35 176,243

Tier 2

Project Rearing acres Juvenile

La Barranca 4.68 350,839

Oklahoma Island 1.71 128,183

McClure Creek 3.34 250,808

Foster Island 2.62 196,579

Tier 3

Project Rearing acres Juvenile

Altube Island 1.49 111,847

Flynn Unit 0.90 67,786

4. What biological objectives and specific performance metrics (at the Central Valley and/or 

watershed scale) does the project proposal address? What local (within-watershed) 

performance metrics do the project proposals address? Increases juvenile rearing habitat 

productivity in the middle Sacramento River reach to move closer to the CVPIA doubling 

goal.

5. Prediction of project outcome (Quantitative temporal prediction of expected project 

outcome. Best if made in terms of means objectives, i.e. short-term objective specific 

monitoring measures physical/biological response to management action.) See #3 above for 

Chinook habitat potential.

6. How the project proposal is cost-effective relative to its complexity, regulatory environment, 

and potential ecological and community benefits. Are the proposed costs substantiated? 

Does the majority of funding support on-the-ground restoration?

7. How does the project proposal fit within the ARM process and DSM model? What 

fundamental objective does it contribute to? (Peterson, Coarse Resolution Model Report, 

2014) What means objective(s) does the project proposal implement/test? (Peterson, Coarse 

Resolution Model Report, 2014) Increases Chinook Salmon production in Sac River.

8. If the project proposal is focused primarily on science or monitoring, how will the results 

inform the DSMs or reduce uncertainty in decision-making? N/A

9. What are the impacts of not doing the project proposal? Explain collaboration with or 

among stakeholders and agency partners in development and/or implementation of this 

project proposal. The group just last year expanded the focus, based on SIT priorities, to 

working in this reach of the river. Coordination has occurred within the interagency group 

and needs to be expanded to the local communities and counties close to the projects.
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10. Are there stakeholder objections to the project proposal as described? If so, what are these 

and how are they addressed? None I’m aware of and any conflicts will be addressed by the 

appropriate restoration team members as they arise.

Data Management

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

Total Cost: $11,550,000.00

Year Funding 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

2021 Supplemental $2,000,000 $2,000,000 $0

2022 CVPRF $2,000,000 $2,000,000 $0
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Sacramento River-San Joaquin River

Intervention: Delta Smelt Supplementation Studies: Genetics and Tagging

Tagging and monitoring program for supplementation of Delta Smelt.

DCN: 21BDAO003

Watershed: Sacramento-San Joaquin

Funding Years: 9/11/20 - 10/1/23

Priority: High

Partners: USFWS/UCD

Related Programs: NA

Authority

Provision Justification

3406(b)(4) Other CVP Impacts

Metrics 

Name Value Units Comment

GT-seq panels 1+ # of panels 

New markers 1+ # of markers

Project Schedule 

Date Description

10/1/2023 Final Report

Roles and Responsibilities 

Project Sponsor: USBR

Project Manager: USBR/USFWS

Project Management Team: USBR/USFWS

Project Technical Team(s): USBR/USFWS/UCD

Team Position Name Discipline Contact Info

Project Management 

Reclamation

Andrew Schultz Fish Biologist aschultz@usbr.gov

Project Management 

USFWS

Evan Carson Genetics evan_carson@fws.gov

PMT Data Steward TBD

Technical Team Andrew Schultz Fish Biologist aschultz@usbr.gov

Evan Carson Genetics evan_carson@fws.gov

Tien-Chieh Hung Aquaculture thung@ucdavis.edu
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Narrative 

The purpose of this Agreement is to fund the USFWS to: (1) develop novel genetic markers for a 

GT-seq panel and update baselines for Delta Smelt for genetic monitoring under the 

Supplementation Program for Delta Smelt; (2) develop an alternative breeding design and spawning 

method necessary to meet the 2019 BiOp twin-mandate to upscale captive propagation for 

supplementation and simultaneously conserve genetic diversity of delta smelt; (3) develop a SOP for 

VIE tagging under the monitoring program for supplementation of Delta Smelt.

Data Management 

Data will be stored and made available in formats consistent with state and federal data policies (e.g., 

Open Data Executive Order 13642). When appropriate it will also be accessible through the USBR's 

Bay Delta Office's website under the Project, Activities, Documents web page. Synthesis, analysis 

and recommendations may occur informally through briefings and presentations as opposed to 

solely formal reports.

Risks

Risk Type Likelihood Impact

General Low due to nature of the research Low

Cost Estimate

Year Fund Total BOR FWS

2021 Supplemental $2,000,000 $2,000,000 $0

2022 WRR $650,830 $650,830 $0

2023 WRR $722,729 $722,729 $0

Total Cost: $3,373,559
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Real-Time Operations: Enhanced Delta Smelt Monitoring Program (EDSM)

Statistically-based sampling program to determine absolute abundance of Delta Smelt, calibrate a 

Delta Smelt life cycle model and conduct real-time monitoring to minimize Delta Smelt entrainment

DCN: 20BDAO022

Watershed: Sacramento-San Joaquin

Funding Years: 2021-2024

Priority: High

Partners: U.S. Fish and Wildlife Service (USFWS)

Related Programs: Delta Juvenile Fish Monitoring Program (DJFMP)

Authority

Provision Justification

3406(b)(15) Documents fish response to Reclamation actions under 

CVPIA and other activities

Metrics 

Name Value Units Comment

Kodiak trawls 

(December-March)

~6400 Samples/year Estimates absolute abundance of adult 

Delta Smelt and provides early warning 

detection to reduce entrainment 

probability

20 mm sampling

(April-November)

~1100 Samples/year Estimates abundance of larval and 

juvenile Delta Smelt and vulnerability to 

entrainment.

Weekly catch data 52 Reports/year Weekly catch report includes number and 

location of captured Delta Smelt and 

other species of concern

Data base 1 Access data 

base

Data base containing all data collected 

under this agreement

Project Schedule 

Date Description

April 1, 2021 Start of performance period

April 2021-March 2024 Weekly catch summaries

March 2024 Final report

March 31, 2024 End of performance period
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Roles and Responsibilities 

Project Sponsor: Bureau of Reclamation

Project Manager: Erwin Van Nieuwenhuyse

Project Technical Team(s):

Team Position Name Discipline Contact Info

Technical lead Jonathan Speegle Fish Biologist jonathan_speegle@fws.gov

Project Management Team:

Team Position Name Discipline Contact Info

Project 

Management Team 

Lead-Reclamation

Erwin Van 

Nieuwenhuyse

Aquatic scientist evannieuwenhuyse@usbr.gov

Project 

Management Team 

Lead-USFWS

Jeff McLain Project Leader jeffrey_mclain@fws.gov

PMT Data Steward

Narrative 

Long term, fixed station monitoring surveys conducted over the last several decades by the 

California Department of Fish and Wildlife provide an invaluable record of the Bay-Delta fish 

community and the distribution of Delta Smelt and other individual fish populations. These data 

cannot be used to estimate absolute abundance of the total Delta Smelt population or the 

proportion of the total population at risk of entrainment. The EDSM is designed to fill these 

important data gaps. EDSM data are collected using a stratified randomized sampling design that 

enables calculation of absolute abundance and the proportion of the population subject to 

entrainment. These data are also used for real-time management of Old and Middle River flows to 

reduce the probability of entrainment. Finally, EDSM data are used to calibrate and validate the 

USFWS Delta Smelt Life Cycle Model which is used to compare flow and non-flow management 

action scenarios.

Under this agreement, USFWS will continue to conduct daily Kodiak trawl sampling during 

December through March to determine the abundance of adult Delta smelt and the proportion 

subject to entrainment. USFWS will also continue to conduct daily 20-mm surveys during AprilNovember to estimate the abundance and vulnerability to entrainment of larval and juvenile Delta 

Smelt. All data will continue to be made available on the Lodi office web site and will be 

summarized in weekly reports.

Data Management 

All data are posted on the USFWS Lodi Office web site.
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Risks

Risk Likelihood Impact

Very low risk 1 1

Cost Estimate

Total Cost: $8,167,500

Year Fund Total BOR FWS

2021 Supplemental $3,000,000 $3,000,000 $0

2022 WRR $2,575,000 $2,575,000 $0

2023 WRR $2,622,500 $2,622,500 $0
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Intervention: FCCL Conservation Hatchery Operation for Delta Smelt Refuge 

Population Maintenance and Research Support

Continue maintaining a delta smelt refuge population under genetic management as a safeguard 

against species extinction in the wild. Conduct research with delta smelt and produce a supply of all 

life stages for research purposes. 

DCN: 20BDAO010

Watershed: Sacramento-San Joaquin

Funding Years: 2/29/2020 – 2/29/2025

Priority: High

Partners: UC Davis

Related Programs: NA

Authority

Provision Justification

3406(b)(4)

Metrics 

Name Value Units Comment

Refugial population 

maintained

0 Genetic 

diversity

The primary objective of the FCCL is to 

maintain a refugial population of Delta 

Smelt with a level of genetic diversity that is 

reflective of the wild population 

Provide fish for 

experiments

0 Number of 

fish 

provided

The secondary objective of the FCCL is to 

provide Delta Smelt to agencies and 

researchers for experiments, including 

experimental releases.

Project Schedule 

Date Description

Mar. Semi-annual performance and financial report

Sep. Semi-annual performance and financial report

Roles and Responsibilities 

Project Sponsor: USBR

Project Manager: USBR/UCD

Project Management Team: USBR/UCD

Project Technical Team(s): USBR/UCD
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Team Position Name Discipline Contact Info

Project Management 

Reclamation Lead

Andrew Schultz Fish Biologist aschultz@usbr.gov

Project Management 

UCD Lead

Tien-Chieh Hung FCCL Director thung@ucdavis.edu

PMT Data Steward TBD

Technical Team Andrew Schultz Fish Biologist aschultz@usbr.gov

Tien-Chieh Hung FCCL Director thung@ucdavis.edu

Mandi Finger GVL Director ajfinger@ucdavis.edu

TBD

Narrative 

Due to a discernible decline in delta smelt population abundance indices, a refuge population for 

this endangered species was created and is maintained at the University of California, Davis (UC 

Davis) Fish Conservation and Culture Laboratory (FCCL). This refuge population program was 

founded in 2007 with the collaboration with U.S. Bureau of Reclamation (USBR) and the Genomic 

Variation Lab (GVL) at UC Davis. The FCCL successfully developed culture techniques for delta 

smelt and with the help of the GVL provides a sustained breeding program of about 500 individuals, 

or 250 pair crosses, annually. Each year about 200,000 larvae are produced via genetically-informed 

crosses to assure high family representation and retention as the fish grow to maturity and complete 

their yearly life cycle. The USBR continues to support the program after the termination of first 

agreement in 2015. Currently the FCCL is producing and maintaining the 12th generation of delta 

smelt on site as a safeguard against the possibility of population-loss.

In addition to the refuge population program, the FCCL works closely with U.S. Fish and Wildlife 

Service (USFWS), the California Department of Fish and Wildlife (CDFW), the Interagency Ecology 

Program, California Department of Water Resources (DWR), and researchers at UC Davis to 

conduct various research projects to understand the causes of population decline and provide muchneeded data that informs ongoing habitat restoration efforts under Endangered Species Act. Given 

the endangered status of the fish and the protections this status provides, the work at the FCCL not 

only benefits conservation efforts but also broader efforts pertaining to the Delta ecosystem and 

answer questions that are needed for the coming reintroduction and species supplementation plan 

and decision making. 

The FCCL is now applying for the support for the next five-year operation. For the new agreement, 

the FCCL will be putting more effort on serving as a conservation hatchery to provide more fish for 

research and educational purposes and potential experimental release or mesocosm studies of delta 

smelt. The FCCL is so far the only place that is capable of conducting mass production of delta 

smelt for research purposes. The goal is to expand the fish production capacity to 50,000 sub-adult 

delta smelt in addition to the needs of refuge population and other research projects. By doing so, 

we are expecting to hire four more fish care staff and increase some costs of operational supplies. 

The deliverable should include delta smelt of all life stages, presentations in science conferences, 

publications in peer-reviewed journals, and semi-annual progress reports.
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Data Management

All the daily operation records and observations will be documented on daily log sheet and 

organized into electronic format monthly. The paper-based log will be stored on site for at least five 

years, and the electronic data will be preserved on local hard drives with regular backup in cloud 

storage on Box. All the reports, publications, and abstracts will be organized and submitted to

USFWS and CDFW per requests on the permits.

Risks

Risk Type Likelihood Impact

Equipment failure Low due to recent upgrades Variable but low due to redundancies

Disease High Variable but manageable under most 

circumstances

Lack of available wild 

brood stock

Low-Moderate as number 

needed is low

High potential

Cost Estimate

Total Cost: $14,029,474

Year Fund Total BOR FWS

2020 WRR –

Supplemental/CalFed

$2,445,829 $2,445,829 $0

2021 CalFed $2,741,741 $2,741,741 $0

2022 CalFed $2,841,545 $2,841,545 $0

2023 CalFed $2,945,733 $2,945,733 $0

2024 CalFed $3,054,627 $3,054,627 $0
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Intervention: Use of Cultured Delta Smelt in Field Studies

This project would investigate the options (barges, floating vessels, net pens, cages, near channel 

facilities, etc.) and associated feasibility of using cultured Delta Smelt to augment and facilitate 

investigation of mechanisms impacting the Delta Smelt population and subsequent recovery efforts.

DCN: 20BDAO032

Watershed: Sacramento-San Joaquin

Funding Years: 12/29/2020 - 12/29/2025

Priority: High

Partners: USFWS. USGS

Related Programs: NA

Authority

Provision Justification

3406(b)(1) Other Other CVP Impacts

Metrics 

Name Value Units Comment

Delta Smelt survival 0-100 percent

Delta Smelt health index

Delta Smelt growth Continuous /time 

period

Project Schedule 

Date Description

Mar. Semi-annual performance and financial report

Sep. Semi-annual performance and financial report

12/29/2025 Final Report

Roles and Responsibilities 

Project Sponsor: USBR

Project Manager: USBR

Project Management Team: USBR/USFWS/USGS

Project Technical Team(s): USBR/USFWS/USGS

Team Position Name Discipline Contact Info

Project Management 

Team Lead

Andrew Schultz Fish Biologist aschultz@usbr.gov

PMT Data Steward TBD

Technical Team Andrew Schultz Fish Biologist aschultz@usbr.gov
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Narrative 

The positive relationship of freshwater flows to populations of various SFE-Delta fish species and 

their habitat has been clearly demonstrated for some taxa (Stevens and Miller 1983; Kimmerer 2002; 

Feyrer et al. 2006; Perry et al. 2018). Previous work shows that Delta Smelt physical habitat increases 

during the fall when outflow, indexed as X2, is located seaward of the freshwater region of the 

Sacramento-San Joaquin Delta (Feyrer et al. 2007; Feyrer et al. 2011; Bever et al. 2016). However, 

several authors have found no to a weak relationship between Delta Smelt and freshwater 

outflow/X2 (Stevens and Miller 1983; Moyle et al. 1992; Jassby et al. 1995; Kimmerer 2002; Bennett 

2005; Mac Nally et al. 2010; Thomson et al. 2010; Miller et al. 2012) and fall X2 has not been found 

to be an important predictor of Delta Smelt population growth rate (Thomson et al. 2010; Maunder 

and Deriso 2011). This has led to uncertainty among fisheries and water resources managers.

Regardless, outflow-related management actions to benefit Delta Smelt are currently in place or 

proposed (USFWS 2008; CNRA 2016; Frantzich et al. 2018; Schultz et al. 2018). Action 4 (Fall X2 

Action) of the Delta Smelt Biological Opinion (USFWS 2008) currently requires Delta outflow be

maintained at an average X2 no greater than 74 km for September and October following wet years 

and 81km following above normal years. While uncertainty remains as to how these actions may 

affect certain habitat factors for Delta Smelt, the prevailing hypothesis is that summer and fall 

habitat conditions are improved for juvenile Delta Smelt when X2 moves seaward (USBR 2012; 

Brown et al. 2014), especially when X2 overlaps the Suisun Bay-Marsh area of the Delta. It is 

predicted that lower water temperatures, harmful algal constituents, nonnative competitor and 

predator abundance, and increased habitat area, turbidity and prey density/biomass will facilitate an 

increase in Delta Smelt catch density, health, growth, and survival within Suisun Bay and Marsh and

at levels greater than other regions. Several ongoing agency projects are seeking to assist in 

evaluating several of these predictions using data from ongoing surveys. However, catch rates of 

Delta Smelt can be very low and leads to difficulty or inability to evaluate outflow and 

environmental conditions to Delta Smelt metrics. It is anticipated that construction and use of 

mesocosms or other designs for holding Delta Smelt for experimentation purposes will assist 

Reclamation in testing hypotheses critical to understanding how Delta smelt are affected by 

environmental conditions and CVP and SWP water operations. It is also anticipated it will also assist 

with the release of propagated Delta Smelt as soon as 2022.

Data Management 

Data will be stored and made available in formats consistent with state and federal data policies (e.g., 

Open Data Executive Order 13642). When data becomes available it will be shared with IEP for 

posting and additional storage on the Interim IEP Data and Metadata Access online portal. It will 

also be accessible through the USBR's Bay Delta Office's website under the Project, Activities, 

Documents web page. Synthesis, analysis and recommendations may occur informally through 

briefings and presentations as opposed to solely formal reports. The DOP anticipates the IEP, 

CSAMP and/or CAMT would represent the target audience for interim presentations and reports.
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Risks

Risk Type Likelihood Impact

Equipment failure Low-Mod Variable but low due to redundancies

Disease High Variable but manageable under most 

circumstances

Vandalism Low Variable but high potential

Cost Estimate

Total Cost: $4,500,000

Year Funding Source Total BOR FWS

2021 Supplemental $1,500,000 $1,500,000 $0

2022 WRR $900,000 $900,000 $0

2023 WRR $700,000 $700,000 $0

2024 WRR $700,000 $700,000 $0

2025 WRR $700,000 $700,000 $0
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Stanislaus River

Status and Trend: Stanislaus River Rotary Screw Trap Monitoring

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

steelhead in the Stanislaus River using rotary screw traps.

DCN: AFRP2131

Watershed: Stanislaus River

Funding Years: 2017 - 2021

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: CVPIA (b)(13), Structured Decision Making

Authority

Provision Justification

(b)(15) CAMP The data from this project is used for DSM 

calibration by the SIT. The data is also used by the 

fish agencies to track salmonid fish production 

performance measures.

Metrics

Name Value Units Comment

Estimate of juvenile 

production in this 

watershed

1 Estimate 

of 

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.

Project Schedule

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 Description

Annually Annual Stanislaus River rotary screw trap report
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Roles and Responsibilities

Project Sponsor:  Heather Casillas

Project Manager: Donnie Ratcliff

Project Technical Team(s):

     Name     Discipline     Contact Info    

USFWS-Lodi Paul Cadrett Biologist    209-649-0898

     

Project Management Team:     

    

Team Position     Name     Discipline     Contact Info    

USFWS-Lodi Paul Cadrett Biologist    209-649-0898

Narrative

The rotary screw trap monitoring activities in the Stanislaus River supply data that are used to 

calibrate the SIT DSM and 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.

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

Risks

Risk Likelihood Impact

Low, unless funding distribution is delayed 1 2
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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
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Habitat and Facility Improvement: Stanislaus River Salmonid Spawning and 

Rearing Habitat Restoration

Steelhead and Chinook salmon spawning and rearing habitat restoration project on the Stanislaus 

River. Gravel injected at upper river locations in Goodwin Canyon.

DCN: 20BDAO017

Watershed: Stanislaus River

Funding Years: Ongoing

Priority: SIT FY2020 Tech Memo: Maintain spawning habitat in the CVP streams

Partners: Sean Smith Construction, ACOE, OID, SSJID, CDFW, DWR

Related Programs: FWS ARP, CVPIA

Authority

Provision Justification

(b)(13) Gravel injection project in Goodwin Canyon

Metrics 

Name Value Units Comment

b13: Stanislaus R: percentage 

of spawning salmonids using 

placed gravel

25 percent Also, 2009 RPA action for steelhead

b13: Stanislaus R; Spawning 

gravel placed annually (tons)

5000 tons Annual value listed in 2019 PA

Juvenile Rearing Habitat 8000 cubic 

yards

Provide alluvial habitat complexity in 

Goodwin Canyon

Large juvenile produced 16000 number 

of fish

Number of large juvenile Chinook at 

Goodwin Canyon

Project Schedule 

Date Description

2019-2020 Structural engineer bridge inspection and final report – completed

2020 ACOE realty license – completed

2020 Temporary entry permits: OID, SSJIID, ACOE - completed

2020 ESA Section 7 Permit - completed

2020 SHPO

2020 404 Permit

2020 401 Permit

2025 Gravel monitoring report

2020 Contract awarded

May 2020-2024 Gravel sorting and other construction preparation begins

July-Sept 2020-2024 Gravel Placement
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Roles and Responsibilities 

Affiliation Name Discipline Contact Info

Reclamation Elissa Buttermore COR, Project 

Manager

ebuttermore@usbr.gov

Reclamation John Hannon Habitat Restoration 

Specialist

Reclamation Luke Davis Permit Specialist

Contractor gravel placement

Narrative 

Spawning and rearing habitat restoration in the Stanislaus are RPMs in Reclamation’s proposed 

action. Juvenile rearing habitat is the core team priority in the Stanislaus River along with spawning 

for spring-run Chinook. 

SIT priorities for Stanislaus River include juvenile rearing habitat for fall-run Chinook and springrun spawning habitat. The gravel addition at Goodwin Canyon provides downstream gravel bars 

and other alluvial features to enhance rearing habitat in the canyon where the river water is cooler 

than in the downstream reaches with more rearing habitat available. The over-summering Chinook 

salmon occur primarily in the Goodwin Canyon down through Two Mile Bar area to roughly 

Knights Ferry depending on the year.

The predicted outcome is increased juvenile rearing habitat resulting in higher fry to smolt survival 

and ultimately higher adult production in the Stanislaus River.

Funding would be used for the on-the-ground work for gravel placement, gravel sorting and 

addition. The targeted locations take advantage of the coolest water temperatures and are in areas 

with minimal predation risk to rearing salmonids in comparison with the outmigration corridor 

through the lower river and delta.

Impacts of not doing are no change in habitat condition and potentially degradation in a high flow 

year as existing coarse substrate is washed downstream. Proposed gravel placement locations are 

largely devoid of gravel after high flows in 2017.

No known stakeholder objections. Any objections will be dealt with on a site-specific basis as the 

project proceeds.

Data Management 

1. Reclamation conducts annual redd mapping at project sites and CDFW conducts weekly riverwide redd counts and escapement survey. Additional juvenile habitat use monitoring would be 

added comparing pre and post fish densities at the site and at control sites in conjunction with 

other habitat projects on the river. Long term trend monitoring is via the rotary screw traps at 

Caswell and Oakdale 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 to be determined—potentially use EDI
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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 project managers and will be disseminated in annual reports.

Risks

Risk Likelihood Impact

Not acquiring permits in time 2 10

Damage to bridge and access issues. 2 9

COVID 3 3

Cost Estimate

Year Fund Total BOR FWS

2021 Supplemental $800,000 $800,000 $0

2022 Unfunded $500,000 $500,000 $0

2023 Unfunded $600,000 $600,000 $0

2024 Unfunded $600,000 $600,000 $0

Total Cost: $2,500,000
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Refuge Water Supply Program Charters 

2021 Annual Obligation Plan

CENTRAL VALLEY PROJECT IMPROVEMENT ACT

TITLE XXXIV OF PUBLIC LAW 102-575
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Refuge: Refuge Water Acquisition Program 

Incremental Level 4 Water Purchases and Level 2 Exchanges

DCN: 21RWSP002

Watershed: Central Valley Wide

Funding Years: 2021 - 2023

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 Justification

(d)(2) Refuge Acquisition IL4 Acquires water to increase incremental level 4 water 

supplies.

Metrics

Name Value Units Comment

d2 Refuge: Inc L4 Water 

Acquisition, including 

Replacement Water

0 acrefeet

Project Schedule

Date Title

Oct. 2021 Incremental Level 4 Water

Roles and Responsibilities

Project Sponsor: Bureau of Reclamation

Project Manager: Heather Casillas

Project Technical Team(s): 

Name Discipline Contact Info

Project Management 

Team Leader

Linda Colella Water Acquisition 

Specialist

lcolella@usbr.gov
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Project Management Team:

Team Position Name Discipline Contact Info

Project Management 

Team Leader

Linda Colella Water Acquisition 

Specialist

lcolella@usbr.gov

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.

Risks

Risk Likelihood Impact

Water Not Available for Purchase 1 1

Cost Estimate

Year Fund Total BOR FWS

2021 CVPRF $8,908,000 $8,908,000 $0

2021 Supplemental $5,797,000 $5,797,000 $0

2022 CVPRF $8,200,000 $8,200,000 $0

2023 CVPRF $8,200,000 $8,200,000 $0

2024 CVPRF $8,200,000 $8,200,000 $0

2025 CVPRF $8,200,000 $8,200,000 $0

2026 CVPRF $8,200,000 $8,200,000 $0

2027 CVPRF $8,200,000 $8,200,000 $0

Total Cost: $63,905,000
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Refuge: Incremental Level 4 Refuge Water Conveyance

Conveyance of surface water and groundwater pumping for refuges 

DCN: 21RWSP001

Watershed: Central Valley wide

Funding Years: 2020 - 2023

Benefits Start Year: 2021

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 Justification

(d)(2) Refuge Acquisition IL4 Conveyance of Level 4 refuge water to 

CVPIA refuges.

Metrics

Name Value Units Comment

Conveyance: Inc L4 Refuge 

Water Conveyance (annual)

22,500 acrefeetInc L4 Water with no Conveyance Cost to 

RWSP for WY2021

Conveyance: Inc L4 Refuge 

Water Conveyance (annual)

50,650 acrefeetInc L4 Surface Water Conveyance for 

WY2021

Conveyance: Inc L4 Refuge 

Water Conveyance (annual)

2,000 acrefeetInc L4 Groundwater Pumping for WY2021

Project Schedule

Date Title

Mar. 2021 Conveyance of Incremental Level 4 Water Supplies

Roles and Responsibilities

Project Sponsor: Bureau of Reclamation

Project Manager: Sonya Nechanicky

Project Technical Team(s): 
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Name Discipline Contact Info

Project Management 

Team Leader

Sonya Nechanicky CVPIA Refuge Water 

Supply Program 

Specialist

(916)41-5114

ptaber@usbr.gov

Refuge Program 

Specialist

Dale Garrison FWS 916-414-6758

dale_garrison@fws.gov

Project Management Team:

Name Discipline Contact Info

Project Management 

Team Leader

Sonya Nechanicky CVPIA Refuge Water 

Supply Program 

Specialist

(916)41-5114

ptaber@usbr.gov

Refuge Program 

Specialist

Dale Garrison FWS 916-414-6758

dale_garrison@fws.gov

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 

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. 

-- 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, 2021, 

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, 2022, 

thru February 28, 2023).

--FY23 represents projected costs to convey Incremental Level 4 water supplies to those CVPIA 

refuges with sufficient external conveyance capacity in Contract Water Year 2023 (March 1, 2023, 

thru February 28, 2024)
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Incremental Level 4 metrics (acre-feet estimates), both surface and ground water, for FY2021-2023 

were developed with data available as of 6/2020.

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

2021 CVPRF $1,198,924 $1,198,924 $0

2021 Supplemental $2,100,000 $2,100,000 $0

2022 CVPRF $2,393,806 $2,393,806 $0

2023 CVPRF $2,661,748 $2,661,748 $0

2024 CVPRF $2,661,748 $2,661,748 $0

2025 CVPRF $2,661,748 $2,661,748 $0

2026 CVPRF $2,661,748 $2,661,748 $0

2027 CVPRF $2,661,748 $2,661,748 $0

Total Cost: $19,001,470
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Refuge: Level 2 Refuge Water Conveyance (FY2021)

Conveyance of surface water and groundwater pumping for refuges 

DCN: 21RWSP003

Watershed: Central Valley Wide 

Funding Years: 2020 - 2023

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 Justification

(d)(1) Refuge Conveyance L2 Conveyance of Level 2 refuge water 

supplies to CVPIA refuges. 

Metrics

Name Value Units Comment

Conveyance: L2 Refuge Water 

Convey (annual)

330,383 acrefeetL2 Surface Water Conveyance for 

WY2021

Conveyance: L2 Refuge Water 

Convey (annual)

55,836 acrefeetL2 Water from Diverse Sources at no Cost 

to RWSP for WY2021

Conveyance: L2 Refuge Water 

Convey (annual)

16,232 acrefeetL2 Groundwater Pumping for WY2021

Project Schedule

Date Title

Mar. 2021 Level 2 Water Conveyance to CVPIA Refuges
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Roles and Responsibilities

Project Sponsor: Bureau of Reclamation

Project Manager: Sonya Nechanicky

Project Technical Team(s): 

Name Discipline Contact Info

Project Management 

Team Leader

Sonya Nechanicky CVPIA Refuge Water 

Supply Program 

Specialist

(916)41-5114

ptaber@usbr.gov

Refuge Program 

Specialist

Dale Garrison FWS 916-414-6758

dale_garrison@fws.gov

Project Management Team:

Name Discipline Contact Info

Project Management 

Team Leader

Sonya Nechanicky CVPIA Refuge Water 

Supply Program 

Specialist

(916)41-5114

ptaber@usbr.gov

Refuge Program 

Specialist

Dale Garrison FWS 916-414-6758

dale_garrison@fws.gov

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 FY2021 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 FY2021, the conveyance budget will be refined and 

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 
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tertiary conveyor is utilized, the secondary conveyor moves refuge water into the tertiary conveyor’s 

system for final delivery to refuge boundaries. 

-- 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).

- FY23 represents projected costs to convey full L2 water supplies to those CVPIA refuges with 

sufficient external conveyance capacity in Contract Water Year 2023 (March 1, 2023, thru February 

28, 2024).

A factor of 3% increase was applied to all FY2021 conveyance estimates to arrive at an estimate for 

FY2022, repeating the process for FY2023 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. 

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
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Cost Estimate

Year Fund Total BOR FWS State/Local 

In Kind

2021 CVPRF $16,880,801 $15,950,793 $930,008 $0

2021 S/LIK $170,000 $0 $0 $170,000

2022 CVPRF $14,717,853 $13,908,266 $809,482 $0

2022 S/KIK $145,000 $0 $0 $170,000

2023 CVPRF $14,717,748 $13,908,266 $809,482 $0

2024 CVPRF $14,717,748 $13,908,266 $809,482 $0

2025 CVPRF $14,717,748 $13,908,266 $809,482 $0

2026 CVPRF $14,717,748 $13,908,266 $809,482 $0

2027 CVPRF $14,717,748 $13,908,266 $809,482 $0

Total Cost: $105,502,394
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Refuge: East Bear Creek Pump Repair 

Station Modifications Project and Service agreement for O&M support services 

DCN: 21RWSP005

Watershed: Bear Creek

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 Construction of conveyance facility 67.0%

(d)(5)-(2) Refuge Facility IL4 Construction of conveyance facility 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.

Project Schedule

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)

2020 Service Agreement (CGB-250 and Tracy Office)

2021 Service Agreement (CGB-250 and Tracy Office)

2022 Construction and Service Agreement (CGB-250 and Tracy 

Office)

2023 Construction and Service Agreement (CGB-250 and Tracy 

Office)
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Roles and Responsibilities

Project Sponsor: Bureau of Reclamation

Project Manager: Pam Taber

Project Technical Team(s): 

Name Discipline Contact Info

Project Management 

Team Leader

Pam Taber CVPIA Program 

Analyst

(916)41-5114

ptaber@usbr.gov

Jesse Castro Electrical/Mechanical 

Engineering Branch 

Chief

916-799-3502

jcastro@usbr.gov

Project Management Team:

Name Discipline Contact Info

Project Management 

Team Leader

Pam Taber CVPIA Program 

Analyst

(916)413-5114

ptaber@usbr.gov

Construction Design Jesse Castro Electrical/Mechanical 

Engineering Branch 

Chief

(916)799-3502

jcastro@usbr.gov

Construction Design Joshua Fender Civil Engineer (916)978-5314

Tracy Fish Facility David Tsao Fish Facility Branch 

Chief

(209)597-1356

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:

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 service agreement with a CGB-250 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, pumps, 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.
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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

2020 CVPRF $205,755 $205,755 $0

2021 CVPRF $1,500,000 $1,500,000 $0

2022 CVPRF $6,600,000 $6,600,000 $0

2023 CVPRF $100,000 $100,000 $0

2024 CVPRF $100,000 $100,000 $0

2026 CVPRF $100,000 $100,000 $0

2027 CVPRF $100,000 $100,000 $0

Total Cost: $8,705,755
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Refuge: Biggs-West Gridley/Gray Lodge Construction 

Biggs-West Gridley/Gray Lodge Wildlife Area Project implementation or contract and construction 

management service

DCN: 21RWSP004

Watershed: Feather River

Funding Years: 2017 - 2023 

Priority: High 

Partners: Ducks Unlimited, FWS, Gray Lodge, BWDWD, CDFW

Related Programs: CVPIA (b)(2) 

Authority

Provision Justification

(d)(5)-(1) Refuge Facility L2 Construction of conveyance facilities-80.0%

(d)(5)-(2) Refuge Facility IL4 Construction of conveyance facilities-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.

Project Schedule

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)

Oct. 2021 FY22 Service Agreement (MP-410 and MPCO)

Oct. 2022 FY23 Service Agreement (MP-410 and MPCO)

May 2023 Construction complete

Roles and Responsibilities

Project Sponsor: Bureau of Reclamation

Project Manager: Pam Taber

Project Technical Team(s): 

Name Discipline Contact Info

Project Management 

Team Leader

Pam Taber CVPIA Program 

Analyst

(916)41-5114

ptaber@usbr.gov

Construction 

Management

Sean Frische Civil Engineer (916)537-7312

sfrische@usbr.gov
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Refuge Program 

Specialist

Dale Garrison FWS 916-414-6758

dale_garrison@fws.gov

Construction 

Management Lead

Vincent Thompson Ducks Unlimited Civil 

Engineer

(916)852-2000

vthompson@ducks.org

Biologist Virginia Gets Ducks Unlimited (916)798-1973

vgetz@duck.org

Biologist John Ranlett Ducks Unlimited jranlett@ducks.org

Project Management Team:

Name Discipline Contact Info

Construction 

Management Lead

Vincent Thompson Ducks Unlimited 

Civil Engineer

(916)852-2000

vthompson@ducks.org

Construction 

Management

Sean Frische Civil Engineer (916)537-7312

sfrische@usbr.gov

District General 

Manager

Eugene Massa Biggs-West Gridley (530)846-3317

janderson@bwgwater.com

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.

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.
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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

2021 CVPRF $976,640 $976,640 $0

2022 CVPRF $976,640 $976,640 $0

2023 CVPRF $488,320 $488,320 $0

Total Cost: $85,449,734
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Refuge: Pixley National Wildlife Refuge 

Develop water supply conveyance alternatives to address water constraints at the Pixley NWR.

DCN: 21RWSP007

Watershed: San Joaquin 

Funding Years: 2021 

Benefits Start Year: 2022

Priority: High 

Partners: FWS

Authority

Provision Percentage

(d)(1)(5) Refuge Facility L2 Construction of conveyance facility 37%

(d)(2)(5) Refuge Facility IL4 Construction of conveyance facility 63%

Metrics

Name Value Units Comment

Full Level 4 water delivery 

capacity.

6,000 acrefeetAmount of water required for optimum 

wetland management, subject to water supply 

availability.

Project Schedule

Date Title

June 2021 Study award 

June 2022 Final report

Roles and Responsibilities

Project Sponsor: Bureau of Reclamation

Project Manager: Pam Taber

Project Management Team:

Name Discipline Contact Info

Pam Taber CVPIA Program 

Analyst

(916)413-5114

ptaber@usbr.gov

Dale Garrison Refuge Program 

Specialist

916)414-6728

dale_garrison@fws.gov
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Narrative

Pixley National Wildlife Refuge is a 6,939-acre refuge that was established in 1959 to provide 

wetland habitat for migratory waterfowl and shorebirds. However, no adequate water supply was 

provided that could sustain the proposed wetland habitat. The refuge currently relies on 

groundwater and is unable to receive Full Level 4 water delivery. As a result, a water supply 

conveyance study will be contracted by an engineering design consultant to identify potential 

conveyance options to provide a reliable and long-term supply of full Level 4 water (L2 and IL4). 

The study is expected to:

1. Develop potential water supply and conveyance alternatives for agency consideration.

2. Compare and prioritize the most promising alternatives.

3. Develop conceptual designs.

4. Preparing planning level construction cost estimates.

5. Identify possible operational concerns associated with priority alternatives.

Based on the study outcomes Reclamation will issue an A/E design contract to begin design work 

on the selected conveyance alternative(s). The timeline for measurable benefits of the project 

depends on the alternatives identified and selected for design, design activities, environmental 

compliance and permitting activities, and implementation funding.

Data Management

Data and reports will be maintained within Reclamation's Bay-Delta Area Office.

Risks

Risk Likelihood Impact

Inability for refuge to receive full Level 4 water. 1 1

Cost Estimate

Year Fund Total BOR FWS

2021 CVPRF $450,000 $450,000 $0

Total Cost: $450,000
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Refuge: Sutter Construction 

Sutter NWR Lift Station Construction Project

DCN: 21RWSP006

Watershed: Sacramento River

Funding Years: 2017 - 2020

Priority: High 

Partners: Ducks Unlimited, FWS, CDFW, CDWR

Related Programs: CVPIA b2 

Authority

Provision Justification

(d)(5)-(1) Refuge Facility L2 Construction of conveyance facility-78.0%

(d)(5)-(2) Refuge Facility IL4 Construction of conveyance facility-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.

Project Schedule

Date Title

Oct. 2018 FY19 Service Agreement (CGB410 and CGBCO)

Oct. 2019 FY20 Service Agreement (CGB410 and CGBCO)

Oct. 2020 FY21 Service Agreement (CGB410 and CGBCO)

Oct. 2021 FY22 Service Agreement (CGB410 and CGBCO)

Oct. 2022 Construction completion

Roles and Responsibilities

Project Sponsor: Bureau of Reclamation

Project Manager: Pam Taber

Project Technical Team(s): 

Name Discipline Contact Info

Project Management 

Team Leader

Pam Taber CVPIA Program 

Analyst

(916)41-5114

ptaber@usbr.gov

Construction 

Management

Sean Frische Civil Engineer (916)537-7312

sfrische@usbr.gov

Refuge Program 

Specialist

Dale Garrison FWS 916-414-6758

dale_garrison@fws.gov
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Name Discipline Contact Info

Construction 

Management

Vincent Thompson Ducks Unlimited Civil 

Engineer

(916)852-2000

vthompson@ducks.org

Biologist Virginia Gets Ducks Unlimited (916)798-1973

vgetz@duck.org

Biologist John Ranlett Ducks Unlimited jranlett@ducks.org

Project Management Team:

Name Discipline Contact Info

Project Management 

Team Leader

Pam Taber CVPIA Program 

Analyst

(916)41-5114

ptaber@usbr.gov

Construction 

Management

Sean Frische Civil Engineer (916)537-7312

sfrische@usbr.gov

Refuge Program 

Specialist

Dale Garrison FWS 916-414-6758

dale_garrison@fws.gov

Construction 

Management

Vincent Thompson Ducks Unlimited Civil 

Engineer

(916)852-2000

vthompson@ducks.org

Biologist Virginia Gets Ducks Unlimited (916)798-1973

vgetz@duck.org

Biologist John Ranlett Ducks Unlimited jranlett@ducks.org

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 and 

permitting were completed in the spring of 2020. The Lift Station will be equipped with state-of-theart cylindrical fish screens. Project construction is expected to start in 2021, 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.

Reclamation has committed to providing construction contract and management services to Ducks 

Unlimited for project implementation. These services will be provided by Reclamation's California 

Great Basin Construction Office (CGBCO) in Willows, CA. CGB-410 will enter into annual service 

agreements with CGBCO 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 (CGB-200) as Engineer of Record. CGB-410 will enter into annual service agreements with 

CGB-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 
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Financial Assistance agreement between FWS and Ducks Unlimited (funds for this agreement were 

obligated in FY18).

Data Management

Project information will be maintained within Reclamation's Resources Management Division, 

Program Management Branch (CGB-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

2021 CVPRF $652,790 $652,790 $0

2021 Supplemental $2,222,130 $2,222,130 $0

2022 CVPRF $577,790 $577,790 $0

Total Cost: $11,237,623
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Independent Programs Charters

2021 Annual Obligation Plan

CENTRAL VALLEY PROJECT IMPROVEMENT ACT

TITLE XXXIV OF PUBLIC LAW 102-575
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Habitat and Facility Improvement: Trinity River Restoration Program (TRRP) 

Channel Restoration Projects. Implementation of a river restoration project (Chapman Ranch Phase 

B) using CVPIA funding. 

DCN: 21INDP001

Watershed: Trinity River

Funding Years: 2020 - 2021

Priority: 1 - 2000 Record of Decision

Partners: BLM, CDFW, DWR, Hoopa Tribe, NMFS, USFS, Yurok Tribe

Related Programs: No Data.

Authority

Provision Justification

(b)(21) Trinity River Restoration Program

Metrics

Name Value Units Comment

Increase in channel length 2.4 miles New channel edge length created at base flow 

including realigned main channel and side 

channels

Riparian habitat planting 16.49 acres Area of new willow-cottonwood forest created

Beaver dam analogs 6 BDAs Low cost wood structures to emulate beaver 

dams, creating topographic and temperature 

heterogeneity in side channel habitat and 

increasing groundwater elevation in associated 

floodplain

Increase in presmolt habitat 

area at summer baseflow 

(450cfs)

85 percent Change in weighted usable area for chinook 

salmon. 

Increase in presmolt habitat 

in 1.5 yr flow event (6,000 

cfs)

288 Percent Change in weighted usable area for chinook 

salmon

Project Schedule

See Trinity River Restoration Program Annual Progress Report. 
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Roles and Responsibilities 

Project Sponsor:

Project Manager: 

Project Technical Team(s): 

Name Discipline Contact Info

Project Management Team: 

Team Position Name Discipline Contact Info

Project Management 

Team Leader

PMT Data Steward

Narrative

The Chapman Ranch Phase B channel rehabilitation project is situated near 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 Chapman Ranch 

area has a narrow, straight channel with a very thin riparian corridor surrounded by mine tailings and 

terraces of mine sediment. A previous project built in 2019 (Chapman Ranch Phase A) created a 

series of three meanders which increased bank length and provided alcove and side channel habitat, 

as well as a several fold increase in floodplain area. Chapman Ranch Phase B will create additional 

floodplain habitat but focuses on creation of a complex of high and low flow side channels. 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. 

Data Management

Information will be retained in the TRRP Office.

Risks

Risk Likelihood Impact

No data
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Cost Estimate

Year Fund Total BOR FWS

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

2026 CVPRF $1,500,000 $1,500,000 $0

2027 CVPRF $1,500,000 $1,500,000 $0

Total Cost: $10,500,000
FY2021 CVPIA Obligation Plan - Public Draft

Real Time Operations: 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: 21INDP002

Watershed: Trinity River

Funding Years: 2021

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 Justification

(b)(21) These are actions required by the Act for restoration 

actions on the Trinity River.

Metrics

Name Value Units Comment

No Data

Project Schedule

Date Description

No Data

Roles and Responsibilities 

Project Sponsor: Heather Casillas

Project Manager: Mike Dixon

Project Technical Team(s): 

Name Discipline Contact Info

Mike Dixon Exec. Director mdixon@usbr.gov

Project Management Team: 

Team Position Name Discipline Contact Info

Project Management 

Team Leader

Mike Dixon Exec. Director mdixon@usbr.gov

PMT Data Steward Eric Peterson epeterson@usbr.gov
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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 – Executive Director, Secretary, Grants Specialist, Indian Self 

Determination Specialist

TMC - This task funds agency, Hoopa Valley Tribe and 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

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, civil engineer, outreach coordinator, 

civil engineering technicians (2), natural resource specialist

Miscellaneous – TSC agreement for FEMA flood compliance modeling, temporary access 

agreements for restoration projects

Planning - Two contracts: NEPA support, Geophysical support services; interagency agreement for 

BLM NEPA review

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

TRRP Science Personnel - Science Branch Chief, data steward, physical scientist, fish biologist, 

natural resource specialist

Science Program Support - Salary for program Riparian Ecologist employed by Hoopa Valley Tribe

Status & Trend Monitoring

1. Redd Distribution

2. Outmigrant monitoring

3. Stream Gaging
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4. Chinook CWT

5. Chinook Run Size Estimation

6. Tribal Harvest Monitoring

7. Fall Run Scale Age

8. Sport Harvest/Trinity Creel Survey

Effectiveness Monitoring

Channel Rehab Effectiveness Monitoring - Field surveys and re-modeling of restoration sites to 

assess performance over time

Hatchery

Run size estimation - Operation of Junction City Weir, hatchery monitoring

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

Risk Likelihood Impact

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

2026 WRR $9,991,221 $9,991,221 $0

2027 WRR $9,991,221 $9,991,221 $0

Total Cost: $79,929,768
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Habitat and Facility Improvement: San Joaquin River Restoration Program 

Mendota Pool Bypass and Reach 2B Project. Construction of Mendota Pool Bypass for flow routing 

and fish passage 

DCN: 21INDP003

Watershed: San Joaquin 

Funding Years: 2020 - 2024

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 Justification

SJRRP (PL111-11) & 3406(c)(1) Pursuant to 111-11 up to $2 million of CVPIA 

restoration funds will be set aside for the San Joaquin 

River Restoration Program.

Metrics

Name Value Units Comment

Restore and maintain fish populations

Project Schedule 

Date Description

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.

Roles and Responsibilities 

Name Discipline Contact Info

Project Management 

Team

Jessica Andrieux Natural Resource 

Specialist

916-978-5461, 

jandrieux@usbr.gov

Project Management 

Team 

Towns Burgess SJRRP Lead Fish 

Biologist

916-978-5446, 

oburgess@usbr.gov
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Project Management Team:

Team Position Name Discipline Contact Info

Project Manager Don Portz SJRRP Program Manager 916-978-5464, 

dportz@usbr.gov

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 

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 at the head of the Compact Bypass near 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 will separate emigrating juvenile 

salmon from water diverted into Mendota Pool and return the fish to the Compact Bypass, 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 current 30% design for the fish screen is a paired vee screen, capable of passing 

2,000 cfs, and designed to NMFS fish screen criteria for approach, sweeping, and bypass entrance 

velocities (NMFS 2008). 

Fiscal year 2021 funds will 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 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.
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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.

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

2026 CVPRF $2,000,000 $2,000,000 $0

2027 CVPRF $2,000,000 $2,000,000 $0

Total Cost: $36,000,000
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Habitat and Facility Improvement: Habitat Restoration Program (HRP) 

Land Protection and Habitat Restoration Projects 

DCN: 21INDP004

Watershed: Central Valley Wide

Funding Years: 2021 - 2023

Priority: 1 - Program Priority

Partners: River Partners, Santa Clara Valley Open Space Authority, Sierra Foothill 

Conservancy, Center for Natural Lands Management, California Rangeland 

Trust, The Nature Conservancy, Bureau of Land Management, U.S. Fish and 

Wildlife Service National Wildlife Refuges

Related Programs: Central Valley Project Conservation Program

Authority

Provision Justification

HRP (b)(1) - other Restores and improves habitat as stated in this section.

Metrics

Name Value Units Comment

Number of acres of habitat 

restored for SWRCB 

Decision 1641

TBD acres Acres restored through habitat 

restoration actions for D-1641

Number of acres of habitat 

protected

TBD acres Acres protected through fee title 

acquisition and/or conservation 

easement actions

Number of acres of habitat 

restored

TBD acres Acres restored through habitat 

restoration actions

Number of acres of habitat 

protected for SWRCB 

Decision 1641

TBD acres Acres protected through fee title 

acquisition or conservation easement 

actions for D-1641

Increases in population 

numbers from restoration 

actions

TBD number of 

improvements

These actions will contribute towards 

recovery criteria goals. 

Increases in various habitat 

types per acre

TBD acres Improvements in quantity of habitat 

types per acre from habitat restoration 

activities.

Number of Recovery 

Actions

TBD number of 

actions

These actions will contribute toward 

recovery criteria goals. 
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224

Project Schedule

Date Description

September 2022 Protection actions completed

September 2022 Restoration actions completed 

September 2022 Captive propagation and reintroduction actions completed

Roles and Responsibilities

Project Sponsor: Bureau of Reclamation, CGB-150; US Fish and Wildlife Service, Sacramento Fish 

and Wildlife Office

Project Manager: BOR Daniel Strait, USFWS Madeline Drake

Project Technical Team(s): HRP Grants Technical Team

HRP Technical Team Name Discipline Contact Info

US Fish and Wildlife 

Service

Madeline Drake Fish and Wildlife 

Biologist

916-414-6685

madeline_drake@fws.

gov

Bureau of 

Reclamation

Daniel Strait Natural Resources 

Specialist 

916-978-5052

dstrait@usbr.gov

Bureau of 

Reclamation

Ned Gruenhagen Wildlife Biologist 559-262-0343

ngruenhagen@usbr.go

v

US Fish and Wildlife 

Service

Josh Hull Fish and Wildlife 

Biologist

916-414-6742

josh_hull@fws.gov

Bureau of 

Reclamation

Jamie Griffin Natural Resources 

Specialist

916-573-9060

jgriffin@usbr.gov

Project Management Team:

Team Position Name Discipline Contact Info

Project Management 

Team Leader

BOR - Anastasia 

Leigh 

USFWS - Donald 

Ratcliff

Regional 

Environmental 

Officer

Central Valley 

Supervisor

aleigh@usbr.gov

donald_ratcliff@fws.g

ov

PMT Data Steward Daniel Strait Natural Resources 

Specialist

dstrait@usbr.gov

Narrative

Improvement activities will include land protection and habitat restoration projects to conserve 

CVP-impacted listed species and habitats, and species captive propagation and reintroduction 

projects to facilitate species recovery. Land protection 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-
FY2021 CVPIA Obligation Plan - Public Draft

225

impacted listed species whose populations are present nearby. Species captive propagation and 

reintroduction projects are those where individuals of listed plants or animals are captured, bred in 

captivity, and their progeny returned to the wild to increase population numbers. All funded projects 

are designed to meet specific recovery criteria in U.S. Fish and Wildlife Service species recovery 

plans. Of project funds available each year, 50% will be targeted toward land protection. 

Data Management

Information for this Charter, including all project files, will be permanently housed at BOR's 

California-Great Basin Regional Office in Sacramento, and FWS's California-Great Basin Regional 

Office in Sacramento. Additional information may be found at the HRP/CVPCP website at 

http://www.usbr.gov/mp/cvpcp/.

Risks

Risk Likelihood Impact

No risks are anticipated. 1 1

Cost Estimate

Year Fund Total BOR FWS

2021 CVPRF $1,096,832 $806,110 $290,722

2022 CVPRF $1,123,659 $569,446 $554,213

2023 CVPRF $1,500,000 $750,000 $750,000

2024 CVPRF $1,500,000 $750,000 $750,000

2025 CVPRF $1,500,000 $750,000 $750,000

2026 CVPRF $1,500,000 $750,000 $750,000

2027 CVPRF $1,500,000 $750,000 $750,000

Total Cost: $9,720,491
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Unfunded Charters

2021 Annual Obligation Plan

CENTRAL VALLEY PROJECT IMPROVEMENT ACT

TITLE XXXIV OF PUBLIC LAW 102-575
FY2021 CVPIA Obligation Plan - Public Draft

228

Special Studies: Central Valley Wild Salmonid Demographics 

This study will fill critical knowledge gaps by designing a monitoring network and associated 

statistical models to estimate the key demographic parameters in the Science Integration Team’s 

(SIT) decision support model. 

DCN: 21FHRP001 

Watershed: Upper Sacramento Tributaries

Funding Years: 2020 - 2025 

Priority: Science Integration Team’s (SIT) high-priority demographic parameters

Partners: USBR, USFWS, USGS

Related Programs: CVPIA, LTO 

Authority

Provision Justification

CVPIA 3046(g)(4) Directly informs ecosystem and water system operations 

models related to 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.

Metrics 

Name Value Units Comment

Demographic parameters 1 metadata Instream rearing survival

Demographic parameters 1 metadata Instream growth rates

Demographic parameters 1 metadata Salmonid territory size

Demographic parameters 1 metadata Instream movement and outmigration 

timing

Project Schedule 

Date Description

2021 Study planning, permitting, pilot study, efficiency trials, 

2022 Study implementation, data acquisition

2023 Study implementation, data acquisition, analyses and reporting, 

Decision Support Model (DSM) integration

2024 Study implementation, data acquisition, analyses and reporting, DSM 

integration

2025 Final analyses, synthesis, reporting, DSM integration
FY2021 CVPIA Obligation Plan - Public Draft

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Roles and Responsibilities 

Project Sponsor: USBR

Project Manager: Michael Beakes USBR

Project Technical Team(s): Michael Beakes USBR, Rod Wittler USBR, Bryan Matthias USFWS, 

Russell Perry USGS, Jim Peterson USGS-OSU, Adam Duarte USGS-OSU, Mike Urkov FlowWest

Name Discipline Contact Info

Michael Beakes Ph.D. Biologist mbeakes@usbr.gov

Rod Wittler Ph.D., PE rjwittler@usbr.gov

Bryan Matthias Ph.D. Fisheries bryan_matthias@fws.gov

Russell Perry Ph.D. Fisheries rperry@usgs.gov

James Peterson Ph.D. Fisheries jt.peterson@oregonstate.edu

Adam Duarte Ph.D. Fisheries adam.duarte@oregonstate.edu

Mike Urkov Sr. Env. Planner murkov@flowwest.com

Project Management Team:

Team Position Name Discipline Contact Info

Project 

Management Team 

Lead

Michael Beakes Ph.D. Biologist mbeakes@usbr.gov

PMT Data Steward Rod Wittler Ph.D., PE rjwittler@usbr.gov

Technical Lead Bryan Matthias Fisheries bryan_matthias@fws.gov

Technical Lead Russell Perry Ph.D. Fisheries rperry@usgs.gov

Technical Lead James Peterson Ph.D. SDM jt.peterson@oregonstate.edu

Technical Lead Adam Duarte Ph.D. Fisheries adam.duarte@oregonstate.edu

PMT Data Steward Mike Urkov Sr. Env. Planner murkov@flowwest.com

Narrative 

The SIT Monitoring Subgroup Memo “Juvenile Chinook Salmon Demographic Parameters Needs” 

highlighted critical uncertainties about demographic parameters informing the SIT’s DSM. The 

most influential factor affecting SIT’s evaluation of Chinook Salmon restoration strategies was 

survival of wild juvenile Chinook salmon, and the second most influential factor was growth. Lastly, 

the SIT identified the need to evaluate the movement rule sets used by the DSM. Because empirical 

estimates of growth, movement, and survival of wild juvenile Chinook salmon are non-existent, this 

charter will support studies that design, initiate, and implement a PIT-tag monitoring program to fill 

these critical knowledge gaps.

Studies emerging from this charter will focus on the overarching goal of estimating tributary-level 

survival, growth transition, and movement probabilities to directly estimate the key demographic 

parameters in SIT’s DSM. These studies will likely require the installation of PIT tag arrays in these 

natal tributaries (particularly in the downstream sections before fish exit to the mainstem 

Sacramento River and Delta) and along the migratory corridor. Data from PIT tag arrays should be 

supplemented with seining surveys, particularly at locations that are not amenable to the installation 

of PIT tag arrays. These studies will require field crews to check adult escapees for PIT tags during 
FY2021 CVPIA Obligation Plan - Public Draft

230

spawning surveys. The data from the PIT tag readers will provide information on movement and 

survival, data from fish captures during seining efforts will provide information on growth, habitat 

use, survival, and movement that can be integrated with the data from the PIT tag readers, and data 

from spawning ground surveys will provide information needed to estimate in-ocean and delta 

survival. The studies and corresponding surveys should be conducted using the appropriate AFS 

standardized methods and the proper statistical design and estimator to allow the unbiased 

estimation. Examples of proper estimators include (multistrata) Cormack-Jolly-Seber (survival, 

growth, movement) and (multistrata) recapture-resight-recovery models (survival, growth, 

movement). Importantly, these estimators allow for the separate estimation of movement and 

survival which is indistinguishable when using estimators such as the traditional Cormack-JollySeber model. Furthermore, these estimators allow for the estimation of transition probabilities 

among fish size classes (rather than estimating growth as a continuous curve), which matches the 

structure of the SIT’s models. Finally, these estimators allow survival, movement, and growth to be 

related to environmental factors in the way that is needed to inform efforts by the SIT.

Data Management 

Data from this charter’s studies will be stored on external hard drives and internal servers with the 

Bureau of Reclamation and project partners.

Risks

Risk Likelihood Impact

Non-lethal, incidental take of ESA-listed salmonids 2 1

Permit acquisition 1 2

Cost Estimate

Year Fund Total BOR FWS

2021 Unfunded $1,500,000 $1,500,000 $0

2022 Unfunded $1,500,000 $1,500,000 $0

2023 Unfunded $1,500,000 $1,500,000 $0

2024 Unfunded $1,500,000 $1,500,000 $0

2025 Unfunded $1,500,000 $1,500,000 $0

Total Cost: $7,500,000.00
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Special Studies: 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.

DCN: 21FHRP002

Watershed: Upper Sacramento Tributaries

Funding Years: 2020 - 2022

Priority: Science Integration Team (SIT) 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

Partners: CGB, TSC, USACE, USFWS

Related Programs: (b)(13)

Authority

Provision Justification

60% - CVPIA 3046(g)(4) Studies emerging from this charter will directly inform 

ecosystem and water system operations models related to 

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. Partially funded by S&T program.

40% - Science & Technology 

Program (USBR-R&D)

Funded as part of the R&D – S&T program in FY19. Partially 

funded by CVPIA Restoration Fund.

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

Project Schedule 

Date Description

Mar. 2021 Hydrodynamic Modeling Plan

Sep. 2022 Progress Report

Sep. 2023 Technical Memorandum of Design Procedures
FY2021 CVPIA Obligation Plan - Public Draft

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Roles and Responsibilities 

Project Sponsor: Heather Casillas - USBR

Project Manager: Rodney J. Wittler - USBR

Project Technical Team(s): Jenna Paul USBR, Rod Wittler USBR, Yong Lai USBR-TSC, 

David L. Smith USACE

Role Name Discipline Contact Info

Project Lead Jenna Paul Civil Engineer jpaul@usbr.gov

Project Coordinator Rod Wittler Civil Engineer rjwittler@usbr.gov

Project Management Team:

Team Position Name Discipline Contact Info

Project Lead Jenna Paul Civil Engineer jpaul@usbr.gov

PMT Data Steward Jenna Paul Civil Engineer jpaul@usbr.gov

Project Coordinator Rod Wittler Civil Engineer rjwittler@usbr.gov

Fish Behavioralist David L. Smith Civil Engineer/Biologist David.L.Smith@erdc.dren.mil

Numerical Modeler Yong Lai Civil Engineer ylai@usbr.gov

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 Civil 3D. USACE will construct 

the prototype and place it in a large flume, where the velocity field can be evaluated. Two- and 

three-dimensional numerical models will be used to simulate the hydraulic conditions around the 

prototype within the geometry of the flume. The physical modeling will provide calibration and 

validation data for both models. The two- and three-dimensional models include Sedimentation 

and River Hydraulics—Two-Dimensional (SRH-2D) and Unsteady and Unstructured Reynolds 

Averaged Navier-Stokes (U2RANS), respectively. As 3D modeling is impractical on the reach 

scale, a simplifying relationship will be developed between the SRH-2D and U2RANS models. 

The hydrodynamic model results will be imported into the Eulerian- Lagrangian Agent Method 

(ELAM) tool to evaluate fish behavior around the rockwad. Following the 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. 
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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 outmigrating 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: funding from Reclamation’s Science and 

Technology Program and choosing a 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. Supported by the SRSC’s and the Upper Sacramento River Interagency Team.

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 
FY2021 CVPIA Obligation Plan - Public Draft

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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.

Hydrodynamic models, AutoCAD drawings, and progress reports will be archived in the Design 

and Construction Branch of the Interior Region 10 – California-Great Basin (CGB) office. 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.

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 Total BOR FWS

2020 CVPRF $290,000 $290,000 $0

2020 S&T $19,000 $19,000 $0

2021 CVPRF $120,000 $120,000 $0

2021 S&T $96,000 $96,000 $0

2022 CVPRF $90,000 $90,000 $0

2022 S&T $110,000 $110,000 $0

2023 S&T $25,000 $25,000 $0

Total Cost: $750,000
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Status and Trend: SIT Critical Uncertainty Reduction

Improves habitat availability estimates for CVPIA rivers to improve structured decision-making fish 

model results and enhances progress towards meeting CVPIA goals by identifying the most 

beneficial projects.

DCN: 21FHRP003

Classification: Reconnaissance 

Location: Central Valley Wide

Funding Years: 2021 – 2024

Benefits Start Year: 2022 

Priority: SIT FY2020 Tech Memo:

The 2020 Near-Term Restoration Strategy (page 37) states that the SIT 

places a high priority on improving the estimates of existing habitat areas 

used as inputs to the lifecycle models. This project conducts data collection, 

modeling, and analysis required to improve estimates of existing habitat area 

and makes recommendations about changes to the habitat data, the lifecycle 

model code, or both, that would improve the way habitat estimates are used. 

Partners: FWS, CDFW, DWR, CBEC, American Rivers, Trout Unlimited 

Related Programs: Salmon Resiliency Strategy

Authority

Provision Percentage

3406(g) 100.0%

Metrics

Name Value Units Comment

American River Zero

1 

Calibration 

Factor,

Updated 

habitat est.

New habitat model runs using existing 

information for rearing habitat and 

complete substrate mapping for spawning 

habitat. A goal is to address the 

uncertainty and eliminate need for a 

calibration factor in the model.

Yuba River Zero

1 

Calibration 

Factor,

Updated 

habitat est.

New habitat model runs using existing 

information. A goal is to address the 

uncertainty and eliminate need for a 

calibration factor in the model.

Lower-mid Sacramento 

River

Zero

1 

Calibration 

Factor,

Updated 

habitat est.

New habitat model runs using existing 

information. A goal is to address the 

uncertainty and eliminate need for a 

calibration factor in the model.

Upper Sacramento 

River

Zero

1 

Calibration 

Factor,

Updated 

habitat est.

New data 

(LiDAR/Bathymetry/Cover/Substrate) and 

new hydraulic model needed. 
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Name Value Units Comment

Habitat Change 

Estimation

2 Estimates for 

spawning and 

rearing change

Habitat change estimation to integrate how 

habitat changes over time in the SDM.

Clear Creek Zero

1

Calibration 

Factor,

Updated 

habitat est.

New data 

(LiDAR/Bathymetry/Cover/Substrate) and 

new hydraulic model needed.

Upper-mid Sacramento 

River

Zero

1

Calibration 

Factor,

Updated 

habitat est.

New data 

(LiDAR/Bathymetry/Cover/Substrate) and 

new hydraulic model needed.

Feather River Zero

1

Calibration 

Factor,

Updated 

habitat est.

New data 

(LiDAR/Bathymetry/Cover/Substrate) and 

new hydraulic model needed.

Battle Creek Zero

1

Calibration 

Factor,

Updated 

habitat est.

New data 

(LiDAR/Bathymetry/Cover/Substrate) and 

new hydraulic model needed.

Stanislaus River Zero

1

Calibration 

Factor,

Updated 

habitat est.

New and existing data 

(LiDAR/Bathymetry/Cover/Substrate) and 

update hydraulic model in areas of change.

Lower San Joaquin 

River

Zero

1

Calibration 

Factor,

Updated 

habitat est.

New data 

(LiDAR/Bathymetry/Cover/Substrate) and 

new hydraulic model needed.

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. 2022 American River habitat quantified and reported

Dec. 2022 Yuba River habitat quantified and reported

Dec. 2022 Lower-mid Sacramento River habitat quantified and reported

Dec. 2022 Spawning and Rearing Habitat Change estimated and reported

Dec. 2022 Upper Sacramento River habitat quantified and reported

Dec. 2023 Clear Creek habitat quantified and reported

Dec. 2023 Upper-mid Sacramento River habitat quantified and reported

Dec. 2024 Feather River habitat quantified and reported

Dec. 2024 Battle Creek habitat quantified and reported

Dec. 2024 Stanislaus River habitat quantified and reported

Dec. 2025 Lower San Joaquin River habitat quantified and reported
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Project Management Team

Team Position Name Discipline Contact Info

Project Management 

Team Lead

John Hannon Habitat Restoration jhannon@usbr.gov

PMT Data Steward Mark Tompkins Data Management Mtompkins@flowwest.com

Chris Hammersmark

Rod Wittler

Cesar Blanco

Matt Brown

Derek Rupert

Rene Henery

Lisa Hunt

Mark Gard

Mike Memeo

Narrative

The ten watersheds identified in the near term restoration strategy have been prioritized by the 

habitat subgroup into Stage 1 (have existing hydraulic models and just need new model runs with 

updated habitat suitability criteria and need substrate for American R.) Stage 2 (high priority and 

need new habitat data and hydraulic models developed), Stage 3 (second priority and need new 

habitat data and hydraulic models), and Stage 4 (lower priority and need new habitat data and 

hydraulic models). Priorities are based on the age of habitat input quantification data currently used 

in the DSM, the quality of the modeling used, the relative area of impact of the watershed or reach, 

and the ease of updating the habitat input (i.e. availability of data and tools).

Stage 1 - New Model Runs Only:

American River

Yuba River

Lower Mid Sacramento River

Stage 2: New Data and Model Runs:

Upper Sacramento River

Clear Creek

Upper Mid Sacramento River

Stage 3: New Data and Model Runs:

Feather River

Battle Creek

Stanislaus River

Stage 4: New Data and Model Runs:

Lower San Joaquin River
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The scope of work for this effort includes the following:

1. Finalize prioritization of watersheds for new habitat inputs (including considering 

watersheds not in Near Term Restoration Strategy prioritization)

2. Evaluate full census vs. random sample.

3. Acquire and test available hydraulic models and habitat suitability criteria 

4. Collect new physical data (LiDAR, aerial imagery + cover mapping, and substrate mapping), 

as needed

a. Topo-bathy LiDAR

b. Substrate mapping (still partial census)

c. On-the ground sampling / verification

5. Conduct new hydraulic modeling, as needed

6. Conduct new habitat modeling (suitability-based binary rather than suitability curves and 

weighted usable areas) with new hydraulic modeling

7. Conduct field verification of actual habitat use to validate model inputs

8. Format habitat model outputs for use in lifecycle models

9. Evaluate inundation duration component of rearing habitat input and use in model and 

recommend improvements

10. Evaluate potential integration of floodplain food production subsidy to adjacent model 

reaches and recommend use in lifecycle model

11. Evaluate implications of improved spatial resolution of habitat data and recommend 

additional uses (for CVPIA DSM and other tools) 

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 

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 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 submodule in cooperation with the Science Integration Team.
FY2021 CVPIA Obligation Plan - Public Draft

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Risks

Risk Likelihood Impact

Site access for substrate characterization 1 2

Site access for field verification / validation of habitat use 1 1

No improvement in DSM model 1 3

Cost Estimate

Year Fund Total BOR FWS

2021 CVPRF $960,000 $960,000 $0

2022 CVPRF $1,040,000 $1,040,000 $0

2023 CVPRF $1,125,000 $1,125,000 $0

2024 CVPRF $358,000 $358,000 $0

Total Cost: $3,483,000