I've lived in Texas, Washington, and in Silicon Valley California. There is way more bigotry here than any of the other places I've lived.
San Francisco is, broadly speaking, permissive. It is not, however, tolerant, and there's a big difference. San Francisco goes beyond simply disagreeing with half of the nation's politics and values, and into actively promoting an understanding of that half-nation as "horrible, terrible people" (to quote from a former coworker), generally incapable of making legitimate contributions to the nation's political process.