I'm not familiar with the Bainbridge area, but I can give you some ideas for gear that should give you some results.
If you're using spinning gear, try a small herring under a float. On slack water, I like to use a sliding float (look in the archives for tips on rigging a sliding float) and set the bobber stop pretty far up your line. Cast out, let it sink to your bobber stop, and then slowly crank the herring back up toward your float and then back down again.
If the tide is running, you can use a fixed float, hang about 6 feet of line off it, cast it out, and then hold back on it and let the current get your herring rolling. Let it swing back in towards shore and do it again.
Or try slipping a small hoochie squid body over about a 3/8 oz. bullet head jig, and cast it out and lift/retrieve it back to you.
I've also read about guys beach fishing the islands that tie on a drift rig (snap swivel, pencil lead, about a 30" leader and a 2/0 octopus hook, bead on top of hook) with a hootchie squid on the leader, with a bead and Spin-n-Glo on top of the hootchie. Cast it out, let it sink to the bottom, and lift/retrieve it back to you.
If you're hooking bullheads, dogfish and flounder, you're probably spending too much time near bottom. Silvers aren't the bottom-huggers chinook are.
Good luck.
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