| Alameda | Reference | ● Live |
| Alameda Creek | Subordinate | |
| Alameda Naval Air Station | Subordinate | |
| Alcatraz Island | Subordinate | |
| Angel Island (west side) | Subordinate | |
| Angel Island, East Garrison | Subordinate | |
| Ano Nuevo Island | Subordinate | |
| Antioch | Reference | |
| Arcata Wharf | Subordinate | |
| Arena Cove | Reference | ● Live |
| Avalon, Santa Catalina Island | Reference | |
| Balboa Pier, Newport Beach | Subordinate | |
| Bay Slough, east end | Subordinate | |
| Bay Slough, west end | Subordinate | |
| Bechers Bay, Santa Rosa Island | Subordinate | |
| Benicia | Subordinate | |
| Berkeley | Reference | |
| Bishop Cut, Disappointment Slough | Subordinate | |
| Blackslough Landing | Reference | |
| Blakes Landing, Tomales Bay | Subordinate | |
| Bodega Harbor entrance | Subordinate | |
| Bolinas Lagoon | Reference | |
| Borden Highway Bridge, Middle River | Subordinate | |
| Borden Highway Bridge, Old River | Subordinate | |
| Bradmoor Island, Nurse Slough | Reference | |
| Brazos Drawbridge, Napa River | Subordinate | |
| Bucksport | Subordinate | |
| Cabrillo Beach | Subordinate | |
| Calaveras Point, west of | Subordinate | |
| Carmel Cove, Carmel Bay | Subordinate | |
| Catalina Harbor, Santa Catalina Island | Subordinate | |
| Chevron Oil Company Pier, Richmond | Reference | ● Live |
| Clarksburg | Subordinate | |
| Cockrobin Island Bridge, Eel River | Reference | |
| Collinsville | Subordinate | |
| Corkscrew Slough | Subordinate | |
| Corte Madera Creek | Reference | |
| Coyote Creek, Alviso Slough | Reference | |
| Coyote Creek, Tributary no.1 | Subordinate | |
| Coyote Hills Slough entrance | Subordinate | |
| Coyote Point Marina | Subordinate | |
| Crescent City | Reference | ● Live |
| Crockett | Reference | |
| Cuyler Harbor, San Miguel Island | Subordinate | |
| Dumbarton Highway Bridge | Reference | |
| Dutch Slough | Subordinate | |
| Edgerley Island, Napa River | Subordinate | |
| El Segundo, Santa Monica Bay | Subordinate | |
| Elk River Railroad Bridge | Subordinate | |
| Elkhorn Slough railroad bridge | Reference | |
| Elkhorn Slough, Highway 1 Bridge | Subordinate | |
| Elkhorn Yacht Club | Subordinate | |
| Elkhorn, Elkhorn Slough | Reference | |
| Eureka | Subordinate | |
| Eureka Slough Bridge | Subordinate | |
| False River | Subordinate | |
| Fields Landing | Reference | |
| Fort Ross | Subordinate | |
| Gallinas, Gallinas Creek | Reference | |
| Gaviota State Park, Pacific Ocean | Reference | |
| General Fish Company Pier | Subordinate | |
| Georgiana Slough entrance | Subordinate | |
| Gold Street Bridge, Alviso Slough | Subordinate | |
| Granite Rock, Redwood Creek | Subordinate | |
| Grant Line Canal (drawbridge) | Subordinate | |
| Green Cove | Reference | |
| Hercules, Refugio Landing | Subordinate | |
| Hog Island, San Antonio Creek | Subordinate | |
| Holt, Whiskey Slough | Subordinate | |
| Hookton Slough | Subordinate | |
| Humboldt Bay (North Spit) | Reference | ● Live |
| Hunters Point | Reference | |
| Imperial Beach | Subordinate | |
| Inverness, Tomales Bay | Subordinate | |
| Irish Landing, Sand Mound Slough | Subordinate | |
| Joice Island, Suisun Slough | Subordinate | |
| King Harbor, Santa Monica Bay | Subordinate | |
| Kirby Park, Elkhorn Slough | Reference | |
| Korths Harbor, San Joaquin River | Reference | |
| La Jolla (Scripps Institution Wharf) | Reference | ● Live |
| Long Beach Fire Boat Pier | Reference | ● Live |
| Long Beach, Inner Harbor | Subordinate | |
| Long Beach, Terminal Island | Reference | |
| Los Angeles (Outer Harbor) | Reference | ● Live |
| Mad River Slough, Arcata Bay | Subordinate | |
| Mallard Island Ferry Wharf | Reference | |
| Mansfield Cone | Reference | |
| Mare Island | Reference | |
| Marshall, Tomales Bay | Subordinate | |
| Martinez-Amorco Pier | Reference | ● Live |
| Meins Landing, Montezuma Slough | Subordinate | |
| Mission Bay, Campland | Reference | |
| Monterey, Monterey Bay | Reference | ● Live |
| Montezuma Slough | Subordinate | |
| Montezuma Slough Bridge | Subordinate | |
| Moss Landing, Ocean Pier | Subordinate | |
| Mowry Slough | Subordinate | |
| Napa, Napa River | Subordinate | |
| National City, San Diego Bay | Subordinate | |
| New Hope Bridge | Subordinate | |
| Newark Slough | Subordinate | |
| Newport Bay Entrance, Corona del Mar | Reference | |
| Noyo Harbor | Reference | |
| Oakland Airport | Subordinate | |
| Oakland Harbor, Grove Street | Subordinate | |
| Oakland Harbor, Park Street Bridge | Reference | |
| Oakland Inner Harbor | Reference | |
| Oakland Middle Harbor | Subordinate | |
| Oakland Pier | Subordinate | |
| Oakland, Matson Wharf | Subordinate | |
| Ocean Beach, outer coast | Subordinate | |
| Oil Platform Harvest | Reference | |
| Orwood, Old River | Subordinate | |
| Oyster Point Marina | Subordinate | |
| Pacific Mariculture Dock | Subordinate | |
| Palo Alto Yacht Harbor | Subordinate | |
| Petaluma River entrance | Subordinate | |
| Pierce Harbor, Goodyear Slough | Subordinate | |
| Pillar Point Harbor, Half Moon Bay | Reference | |
| Pinole Point | Reference | |
| Pittsburg, New York Slough | Subordinate | |
| Point Bonita, Bonita Cove | Subordinate | |
| Point Buckler | Subordinate | |
| Point Chauncey | Subordinate | |
| Point Isabel | Subordinate | |
| Point Orient | Subordinate | |
| Point Reyes | Reference | ● Live |
| Point San Bruno | Subordinate | |
| Point San Pedro | Subordinate | |
| Point San Quentin | Subordinate | |
| Port Chicago, Suisun Bay | Reference | ● Live |
| Port Hueneme | Subordinate | |
| Port of West Sacramento | Reference | ● Live |
| Port San Luis | Reference | ● Live |
| Potrero Point | Subordinate | |
| Prisoners Harbor, Santa Cruz Island | Subordinate | |
| Prisoners Point | Subordinate | |
| Pyramid Point, Smith River | Reference | |
| Redwood City, Wharf 5 | Reference | ● Live |
| Redwood Creek Marker 8 | Subordinate | |
| Reynolds, Tomales Bay | Subordinate | |
| Richmond Inner Harbor | Subordinate | |
| Rincon Island, Mussel Shoals | Reference | |
| Rincon Point, Pier 22 1/2 | Reference | |
| Rio Vista | Reference | |
| Sacramento | Subordinate | |
| Samoa | Reference | |
| San Diego (Broadway) | Reference | ● Live |
| San Diego, Quarantine Station | Subordinate | |
| San Francisco (Golden Gate) | Reference | ● Live |
| San Francisco, North Point, Pier 41 | Subordinate | |
| San Leandro Channel, San Leandro Bay | Subordinate | |
| San Leandro Marina | Reference | |
| San Mateo Bridge (east end) | Subordinate | |
| San Mateo Bridge (west end) | Reference | |
| San Nicolas Island | Subordinate | |
| San Simeon | Subordinate | |
| Santa Ana River entrance (inside) | Subordinate | |
| Santa Barbara | Reference | ● Live |
| Santa Cruz, Monterey Bay | Subordinate | |
| Santa Monica, Municipal Pier | Reference | ● Live |
| Sausalito | Subordinate | |
| Sausalito, Corps of Engineers Dock | Subordinate | |
| Seaplane Harbor | Subordinate | |
| Selby | Subordinate | |
| Shelter Cove | Reference | |
| Smith Slough | Subordinate | |
| Snodgrass Slough | Subordinate | |
| Sonoma Creek | Reference | |
| South Bay Wreck | Subordinate | |
| South San Diego Bay | Reference | |
| South San Francisco | Subordinate | |
| Southeast Farallon Island | Subordinate | |
| Steamboat Slough, Snug Harbor Marina | Subordinate | |
| Stockton | Subordinate | |
| Suisun City, Suisun Slough | Subordinate | |
| Suisun Slough entrance | Reference | |
| Terminous, South Fork | Subordinate | |
| Threemile Slough | Subordinate | |
| Threemile Slough entrance | Reference | |
| Tidal Creek, Elkhorn Slough | Reference | |
| Tomales Bay entrance | Subordinate | |
| Trinidad Harbor | Subordinate | |
| Upper drawbridge, Petaluma River | Subordinate | |
| Upper Guadalupe Slough | Subordinate | |
| Vallejo, Mare Island Strait | Subordinate | |
| Ventura | Subordinate | |
| Wards Island, Little Connection Slough | Reference | |
| West Point Slough | Subordinate | |
| Westport | Subordinate | |
| Wilson Cove, San Clemente Island | Reference | |
| Wingo, Sonoma Creek | Subordinate | |
| Yerba Buena Island | Subordinate | |