SEC. 305. INTENDED USE PLAN. 
(a) INTEGRATED PRIORITY LIST.—Section 603(g) (33 
U.S.C. 1383(g)) is amended to read as follows: 
‘‘(g) PRIORITY LIST.— 
‘‘(1) IN GENERAL.—For fiscal year 2009 and 
each fiscal year thereafter, a State shall establish or 
update a list of projects and activities for which as-
sistance is sought from the State’s water pollution 
control revolving fund. Such projects and activities 
shall be listed in priority order based on the method-
ology established under paragraph (2). The State may 
provide financial assistance from the State’s water 
pollution control revolving fund only with respect to 
a project or activity included on such list. In the case 
of projects and activities eligible for assistance under 
section 603(c)(2), the State may include a category or 
subcategory of nonpoint sources of pollution on such 
list in lieu of a specific project or activity. 
‘‘(2) METHODOLOGY.— 
‘‘(A) IN GENERAL.—Not later than 1 year 
after the date of enactment of this paragraph, 
and after providing notice and opportunity for 
public comment, each State (acting through the 
State’s water quality management agency and 
other appropriate agencies of the State) shall es-
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tablish a methodology for developing a priority 
list under paragraph (1). 
‘‘(B) PRIORITY FOR PROJECTS AND ACTIVI-
TIES THAT ACHIEVE GREATEST WATER QUALITY 
IMPROVEMENT.—In developing the methodology, 
the State shall seek to achieve the greatest degree 
of water quality improvement, taking into con-
sideration the requirements of section 602(b)(5) 
and section 603(i)(3) and whether such water 
quality improvements would be realized without 
assistance under this title. 
‘‘(C) 
CONSIDERATIONS
IN
SELECTING 
PROJECTS
AND
ACTIVITIES.—In determining 
which projects and activities will achieve the 
greatest degree of water quality improvement, the 
State shall consider— 
‘‘(i) information developed by the State 
under sections 303(d) and 305(b); 
‘‘(ii) the State’s continuing planning 
process developed under section 303(e); 
‘‘(iii) the State’s management program 
developed under section 319; and 
‘‘(iv) conservation and management 
plans developed under section 320. 
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‘‘(D) NONPOINT SOURCES.—For categories 
or subcategories of nonpoint sources of pollution 
that a State may include on its priority list 
under paragraph (1), the State may consider the 
cumulative water quality improvements associ-
ated with projects or activities in such categories 
or subcategories. 
‘‘(E) EXISTING
METHODOLOGIES.—If a 
State has previously developed, after providing 
notice and an opportunity for public comment, 
a methodology that meets the requirements of 
this paragraph, the State may use the method-
ology for the purposes of this subsection.’’. 
(b) INTENDED USE PLAN.—Section 606(c) (33 U.S.C. 
1386(c)) is amended— 
(1) in the matter preceding paragraph (1) by 
striking ‘‘each State shall annually prepare’’ and in-
serting ‘‘each State (acting through the State’s water 
quality management agency and other appropriate 
agencies of the State) shall annually prepare and 
publish’’; 
(2) by striking paragraph (1) and inserting the 
following: 
‘‘(1) the State’s priority list developed under sec-
tion 603(g);’’; 
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(3) in paragraph (4)— 
(A) by striking ‘‘and (6)’’ and inserting 
‘‘(6), (15), and (17)’’; and 
(B) by striking ‘‘and’’ at the end; 
(4) by striking the period at the end of para-
graph (5) and inserting ‘‘; and’’; and 
(5) by adding at the end the following: 
‘‘(6) if the State does not fund projects and ac-
tivities in the order of the priority established under 
section 603(g), an explanation of why such a change 
in order is appropriate.’’. 
(c) TRANSITIONAL PROVISION.—Before completion of 
a priority list based on a methodology established under 
section 603(g) of the Federal Water Pollution Control Act 
(as amended by this section), a State shall continue to com-
ply with the requirements of sections 603(g) and 606(c) of 
such Act, as in effect on the day before the date of enactment 
of this Act. 
SEC. 306. ANNUAL REPORTS. 
Section 606(d) (33 U.S.C. 1386(d)) is amended by in-
serting ‘‘the eligible purpose under section 603(c) for which 
the assistance is provided,’’ after ‘‘loan amounts,’’. 
SEC. 307. TECHNICAL ASSISTANCE. 
Title VI (33 U.S.C. 1381 et seq.) is amended— 
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(1) by redesignating section 607 as section 608; 
and 
(2) by inserting after section 606 the following: 
‘‘SEC. 607. TECHNICAL ASSISTANCE. 
‘‘(a) SIMPLIFIED PROCEDURES.—Not later than 1 
year after the date of enactment of this section, the Admin-
istrator shall assist the States in establishing simplified 
procedures for treatment works to obtain assistance under 
this title. 
‘‘(b) PUBLICATION OF MANUAL.—Not later than 2 
years after the date of the enactment of this section, and 
after providing notice and opportunity for public comment, 
the Administrator shall publish a manual to assist treat-
ment works in obtaining assistance under this title and 
publish in the Federal Register notice of the availability 
of the manual. 
‘‘(c) COMPLIANCE CRITERIA.—At the request of any 
State, the Administrator, after providing notice and an op-
portunity for public comment, shall assist in the develop-
ment of criteria for a State to determine compliance with 
the conditions of funding assistance established under sec-
tions 602(b)(13) and 603(d)(1)(E).’’. 
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SEC. 308. AUTHORIZATION OF APPROPRIATIONS. 
Section 608 (as redesignated by section 307 of this Act) 
is amended by striking paragraphs (1) through (5) and in-
serting the following: 
‘‘(1) $2,000,000,000 for fiscal year 2008; 
‘‘(2) $3,000,000,000 for fiscal year 2009; 
‘‘(3) $4,000,000,000 for fiscal year 2010; and 
‘‘(4) $5,000,000,000 for fiscal year 2011.’’. 
TITLE IV—GENERAL PROVISIONS 
SEC. 401. DEFINITION OF TREATMENT WORKS. 
Section 502 (33 U.S.C. 1362) is amended by adding 
at the end the following: 
‘‘(25) TREATMENT WORKS.—The term ‘treatment 
works’ has the meaning given that term in section 
212.’’. 
SEC. 402. FUNDING FOR INDIAN PROGRAMS. 
Section 518(c) (33 U.S.C. 1377) is amended— 
(1) by striking ‘‘The Administrator’’ and insert-
ing the following: 
‘‘(1) FISCAL
YEARS
1987–2006.—The Adminis-
trator’’; 
(2) in paragraph (1) (as so designated)— 
(A) by inserting ‘‘and ending before October 
1, 2006,’’ after ‘‘1986,’’; and 
(B) by striking the second sentence; and 
(3) by adding at the end the following: 
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‘‘(2) FISCAL YEAR 2007 AND THEREAFTER.—For 
fiscal year 2007 and each fiscal year thereafter, the 
Administrator shall reserve, before allotments to the 
States under section 604(a), not less than 0.5 percent 
and not more than 1.5 percent of the funds made 
available to carry out title VI. 
‘‘(3) USE OF FUNDS.—Funds reserved under this 
subsection shall be available only for grants for 
projects and activities eligible for assistance under 
section 603(c) to serve— 
‘‘(A) Indian tribes; 
‘‘(B) former Indian reservations in Okla-
homa (as determined by the Secretary of the In-
terior); and 
‘‘(C) Native villages (as defined in section 3 
of the Alaska Native Claims Settlement Act (43 
U.S.C. 1602)).’’. 
TITLE V—STUDIES 
SEC. 501. STUDY OF LONG-TERM, SUSTAINABLE, CLEAN 
WATER FUNDING. 
(a) STUDY.—Not later than 30 days after the date of 
enactment of this Act, the Comptroller General shall com-
mence a study of the funding mechanisms and funding 
sources available to establish a Clean Water Trust Fund. 
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(b) CONTENTS.—The study shall include an analysis 
of potential revenue sources that can be efficiently collected, 
are broad based, are related to water quality, and that sup-
port the annual funding levels authorized by the amend-
ments made by this Act. 
(c) CONSULTATION.—In conducting the study, the 
Comptroller General, at a minimum, shall consult with 
Federal, State, and local agencies, representatives of busi-
ness and industry, representatives of entities operating pub-
licly owned treatment works, and other interested groups. 
(d) REPORT.—Not later than January 1, 2008, the 
Comptroller General shall submit to the Committee on 
Transportation and Infrastructure of the House of Rep-
resentatives and the Committee on Environment and Public 
Works of the Senate a report on the results of the study. 
SEC. 502. FEASIBILITY STUDY OF SUPPLEMENTAL AND AL-
TERNATIVE CLEAN WATER FUNDING MECHA-
NISMS. 
(a) STUDY.—Not later than 30 days after the date of 
enactment of this Act, the Comptroller General shall com-
mence a study of funding mechanisms and funding sources 
potentially available for wastewater infrastructure and 
other water pollution control activities under the Federal 
Water Pollution Control Act (33 U.S.C. 1251 et seq.). 
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(b) CONTENTS.—The study shall include an analysis 
of funding and investment mechanisms and revenue sources 
from other potential supplemental or alternative public or 
private sources that could be used to fund wastewater infra-
structure and other water pollution control activities under 
the Federal Water Pollution Control Act. 
(c) CONSULTATION.—In conducting the study, the 
Comptroller General, at a minimum, shall consult with 
Federal, State, and local agencies, representatives of busi-
ness, industry, and financial investment entities, represent-
atives of entities operating treatment works, and other in-
terested groups. 
(d) REPORT.—Not later than January 1, 2008, the 
Comptroller General shall submit to the Committee on 
Transportation and Infrastructure of the House of Rep-
resentatives and the Committee on Environment and Public 
Works of the Senate a report on the results of the study. 
TITLE VI—TONNAGE DUTIES 
SEC. 601. TONNAGE DUTIES. 
(a) IN GENERAL.—Section 60301 of title 46, United 
State Code, is amended— 
(1) in the section heading by striking ‘‘taxes’’ 
and inserting ‘‘duties’’; 
(2) by amending subsections (a) and (b) to read 
as follows: 
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‘‘(a) LOWER RATE.— 
‘‘(1) IMPOSITION OF DUTY.—A duty is imposed 
at the rate described in paragraph (2) at each entry 
in a port of the United States of— 
‘‘(A) a vessel entering from a foreign port or 
place in North America, Central America, the 
West Indies Islands, the Bahama Islands, the 
Bermuda Islands, or the coast of South America 
bordering the Caribbean Sea; or 
‘‘(B) a vessel returning to the same port or 
place in the United States from which it de-
parted, and not entering the United States from 
another port or place, except— 
‘‘(i) a vessel of the United States; 
‘‘(ii) a recreational vessel (as defined 
in section 2101 of this title); or 
‘‘(iii) a barge. 
‘‘(2) RATE.—The rate referred to in paragraph 
(1) shall be— 
‘‘(A) 4.5 cents per ton (but not more than 
a total of 22.5 cents per ton per year) for fiscal 
years 2006 through 2007; 
‘‘(B) 9.0 cents per ton (but not more than 
a total of 45 cents per ton per year) for fiscal 
years 2008 through 2017; and 
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‘‘(C) 2 cents per ton (but not more than a 
total of 10 cents per ton per year) for each fiscal 
year thereafter. 
‘‘(b) HIGHER RATE.— 
‘‘(1) IMPOSITION OF DUTY.—A duty is imposed 
at the rate described in paragraph (2) on a vessel at 
each entry in a port of the United States from a for-
eign port or place not named in subsection (a)(1). 
‘‘(2) RATE.—The rate referred to in paragraph 
(1) shall be— 
‘‘(A) 13.5 cents per ton (but not more than 
a total of 67.5 cents per ton per year) for fiscal 
years 2006 through 2007; 
‘‘(B) 27 cents per ton (but not more than a 
total of $1.35 per ton per year) for fiscal years 
2008 through 2017, and 
‘‘(C) 6 cents per ton (but not more than a 
total of 30 cents per ton per year) for each fiscal 
year thereafter.’’; and 
(3) in subsection (c) by striking ‘‘taxes’’ and in-
serting ‘‘duties’’. 
(b) CONFORMING AMENDMENTS.—Such title is further 
amended— 
(1) by striking the heading for subtitle VI and 
inserting the following: 
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