- Access USGS
 - Water flow, wetlands, water quality, hazards and more, from the U.S. Geological Survey. - Bay Institute of San Francisco, The
- Dedicated to the protection and restoration of the ecosystems of San Francisco Bay, the Sacramento - San Joaquin delta, and the rivers, streams and watersheds tributary to the estuary.
- Cosumnes River Preserve
- Learn about, or get involved in ecosystem restoration on the only undammed river on the west slope of the Sierra.
- Don Edwards San Francisco Bay National Wildlife Refuge
- Exists to preserve wildlife habitat, protect threatened and endangered species, protect migratory birds, and provide opportunities for nature study.
- San Francisco Bay Conservation and Development Commission
- Established to prevent the unnecessary filling of San Francisco Bay and to increase public access to and along the Bay shoreline.
- San Francisco Bay Model Visitor Center
- Unique scientific tool for exploring water movement patterns in the San Francisco Bay-Delta Estuary.
- San Francisco Estuary Institute
- Mission: to provide the scientific understanding necessary to manage the complex and biologically rich San Francisco Estuary.
- San Franciso Estuary Project
- Save San Francisco Bay Association
- South Bay Salt Pond Restoration Project
- Mission is to convert 15,100 acres of commercial salt ponds at the south end of San Francisco Bay to a mix of tidal marsh, mudflat, and other wetland habitats.
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