I don't live in SJ, but I spend a bit of time there for work. These are the places I like in the area. Just to name a few. There are quite a few more I'm sure I missed. Northern Cali has some pretty awesome craft beers and breweries.
San Jose -
Hermitage Brewing Company https://hermitagebrewing.com/ Their Single Hop Series is excellent. There was a taco truck outside the last visit.
Mission Creek Brewing Company missioncreekbrewingco.com Once again, hop forward beers mostly. They're inside of the Wholefoods, so food is around. They also have a decent list of other local-ish beers ie... Drakes, Fieldwork, Devil's Canyon, Bike Dog, Ale Industries etc...
Strike Brewing Co. and Warehouse Taproom http://www.strikebrewingco.com/ More IPA's. They close pretty early.
San Jose Tap houses -
Good Karma http://goodkarmasj.com/ This place is a craft beer/vegan restaurant. So, if that type of food isn't your thing... I'd only go for the beer, to be honest. Their tap list is mostly Cali beers and outstanding.
Original Gravity Public House http://www.originalgravitypub.com/ This is my favorite place in the area. Huge tap list and amazing bottle selection. Tons of rare and harder to find (limited Cali distribution etc...) beers. They have some pretty good gourmet sausages and such.
Greater San Francisco area - If you had more days and wanted to venture out there are endless breweries and things you could do. Sante Adairius (Capitola), Russian River (Santa Rosa), 21st Amendment (SF), Mikkeller (SF), Cellarmaker (SF), The Rare Barrel (Berkeley), Almanac (SF), Drakes (San Leandro), Torpedo Taproom, Sierra Nevada beer (Berkeley), Lagunitas (Petaluma) and on and on. Hell, Sacramento (Track &, Moonraker) and the Central Coast (Firestone Walker, Barrelworks, and Libertine) have some amazing breweries as well.
I'll be looking for beer from Sante Adairius, Cellarmaker, Fieldwork, and a few others. I will be there Friday night August 25th and will definitely be around SJ. Beer will be involved. Hope to see ya!