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Ridolfi, K.; Hoenicke, R.; Van Velsor, K. 2007. Critical Coastal Areas Program, Phase I Final Report. SFEI Contribution No. 541. San Francisco Estuary Institute.
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Hoenicke, R.; Bleier, C. 2007. Watershed Management and Land Use. CCMP Implementation Committee.
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Hoenicke, R.; Hayworth, J. 2005. A Watershed Monitoring Strategy for Napa County. SFEI Contribution No. 428. San Francisco Estuary Institute: Napa,. p 34.
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Hoenicke, R.; Tsai, P.; Bamford, H. A.; Baker, J.; Yee, D. 2002. Atmospheric Concentrations and Fluxes of Organic Compounds in the Northern San Francisco Estuary. Environmental Science and Technology 36 (22), 4741-4747 . SFEI Contribution No. 474.
Hoenicke, R.; Tucker, D.; Tsai, P.; Hansen, E.; Lee, K.; Yee, D. 2002. Atmospheric Deposition of Trace Metals in San Francisco Bay. SFEI Contribution No. 278. San Francisco Estuary Institute: Richmond, CA.
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McKee, L. J. .; Hoenicke, R.; Leatherbarrow, J. E. 2001. Contaminant contributions from the Guadalupe River and Coyote Creek watersheds to the lower South San Francisco Bay. Abstracts of the 5th Biannual State of the Estuary Conference – San Francisco Estuary: Achievements, trends and the future.
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Hoenicke, R.; Tsai, P. 2001. San Francisco Bay Atmospheric Deposition Pilot Study Part 1: Mercury. SFEI Contribution No. 72. San Francisco Estuary Institute: Richmond, CA.
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Hoenicke, R.; Tsai, P.; Hansen, E.; Lee, K. 2001. San Francisco Bay Atmospheric Deposition Pilot Study Part 2: Trace Metals. SFEI Contribution No. 73. San Francisco Estuary Institute: Richmond, CA.
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Hoenicke, R.; Leatherbarrow, J. E. 2000. The Estuary Interface Pilot Study: 1998 Progress Report. SFEI Contribution No. 49. San Francisco Estuary Institute.
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Lowe, S.; Hoenicke, R.; Davis, J. A. 1999. 1999 Quality Assurance Project Plan. SFEI Contribution No. 33. San Francisco Esturary Institute: Oakland.
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Hoenicke, R. 1997. Creating data-quality objectives: A case study. Water Environment Laboratory Solutions 7-9 . SFEI Contribution No. 31.