From personal experience:
North of San Francisco Bay
San Francisco: All free except the last one in Sacramento
Aquatic Park: Free one night only, Extra time maybe with permission from ranger
Clipper Cove at Treasure Island: Free up to 21 days, then need to vacate for 21+days before returning
Candlestick Park: Free but the windsurfers think they own it.
Paradise Cove: Too rolly for me
Camp: Too rolly for me
Petaluma River: Front and Stern anchor alongside the shore above the bridge. A rock barge transits two nights a week and is LARGE.
Petaluma: In town at the turning basin $21/night for 3 nights Water and Electricity. Nice town for visitng.
Napa River: Not good at low tides depending on draft
Suisun Slough; Above the mothball fleet, 1.5 miles up the slough. Tough to enter: a ditch on the charts
between green and red lights on high tide only
Benicia: North of the Carquinez channel west of town
Pittsburg: Across from the plant. Windy but no fetch and good holding. The only place to buy fuel
at retail is the Pittsburg Municipal Marina, no upcharge.
Sacramento River above the Isleton Bridge; Front and rear anchor in line with the channel off to the side.
Walnut Grove: Georgiana Slough. Makes the "Bedroom" look sad.
Sacramento River above Walnut Grove: anyplace out of the way
Sacramento Old Town: Municipal dock in above the Tower Bridge. Fee
Santa Cruz near the pier
Morro Bay north of the mooring field. Lots of swinging so short scope
not to hit moored boats.
San Simeon if you need it but I just went from SF to Catalina
the last time.
Two Harbors west side; Free anchor west of the moorings or close to the dinghy dock if you have a small draft
San Diego; You can work the system for 4 months total per year. Bonus time for small craft warnings when anchored near the SD Yacht Club on weekends. (Normally 3 nights but as long as the red flag is up you can stay)
Gorietta Bay; You can buy a shower
at the Rec Center
Otherwise SD gets old in a hurry. Lot of noise
from the Air Station and too much moving around.
Mexcio: Anywhere you want as long as you want with a proper visa.