I think you mean to say patently, but aside from that mistake I just don't see what you're saying, clearly CA has better weather, it's not a matter of being a "possible exception", the rest well, Cambridge has some decent beers it's true, I lived and worked there for a couple years, but the micro breweries in CA are better. SFO is much more reliable to fly in an out of, I should know, I flew into and out of Logan so many times and countless times flights are cancelled. By the time I'd get to SFO it would be clear blue skies and uneventful arrivals. As for MUNI vs MBTA, SF has much newer, faster trains, MBTA is like going back 40 years to rickety old trains and antiquated (but not quaint) stations. I suppose you disagree, and of course some of this is a matter of opinion, you might like your trains and you might like airport delays, traffic delays, shitty weather for 8/12ths of the year. One thing Cambridge does do better than SFO is universities. I'll give you that. Colorado makes better beer than either Cambridge or San Francisco, better still, English beer of course.
There's a reason why most startups are here, the brightest minds want to live here, after going to school there and getting sick of all the above.