There are no good routes to traverse SF bay but on Sunday take your choice. With one exception: If there is a race at Sears Point then you don't want 37.
I often take 101/280 and 19th Ave through SF. About 6 miles of city traffic but just stay in the middle lane. Never had any problems midday any day.
The pros are: 280 is the best road and no tolls, 680 is further from the bay area.
The cons are: 19th ave, Oakland/Berkley, Walnut Creek, Sears Point.
I've used the FasTrak lanes, no problem, but they are definitely not "Fast" for me.
2009 Holiday Rambler 42' Scepter with ISL 400 Cummins
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2014 Grand Cherokee Overland
Bob