You may want to post this up in the"DLB" section here as some of the guy's there may go out on the bay. I have been out there many times on sail boats. Would go out of the Oakland estuary, Alameda. It's certainly a great place to go sailing. I could remember the wind could wip up and there would be white caps out there . Not so great for performance boats.
We go out on the Bay all the time with both the big boats and the Fountain. With both the Regal and the Sunseeker living in the water it's a simple choice. If the Fountain goes in the Bay we drop in up at Pittsburg since the salinity is low or I have it lifted in at John Beery in Alameda so the trailer won't get soaked in salt water. The Bay has some big water with the tidal swell and does get windy, you also need to pay attention to the afternoon fog in the summer months. There just aren't that many places to go with a fo fast on the Bay and believe me you will find out how unpopular we are when you pull into a place like Sams. I usually get an applause when I shut the motors off. We overnight on the Regal over at Angel Island and sometimes at SF if we want to do a night on the town. It's nicer and more comfortable than a nice hotel. The Sunseeker get's lots of day use but is hard to find a slip big enough to fit into or on. As long as you are vigilant about washing down and flushing when you're done then your equipment will stay alive just fine. You'll find the Delta has way more options and is alot more friendly than the Bay. We spend most of our time there and if you're after affordable dry storage then the Delta is the place.
Update: I got a boat! It's a 2003 Sleekcraft Heritage 30.
Call me crazy, but it's a blast in the bay. I can't run at top speed in the bay usually (except in the morning or early evening), but it's lots of fun and my friends love it. It seems to handle the chop okay, but cutting across the bay with afternoon winds can be challenging since it lacks trim tabs.
Angel Island, Sams, McCovey Cove, etc are fun, but I do need some new destinations to explore. Any other recommendations? Lower Delta would be nice. I don't have a truck to haul it, so I'll be launching out of Alameda for now.
Congratulations on getting the boat! Hopefully you've been getting some time on the water, have you made it to the Delta yet? Labor Day weekend is coming up, you may want to consider staying a few days and checking out the area, should be a lot happening.