Introduced by my smurf friend, the spanking-new coffee on the block is Epicenter Cafe. Located in the SOMA, around the corner from Whole Foods (on Harrison between 3rd and 4th). Spacious, bike rack outside and sofas, high tables and chairs so you can sit around and geek out with their free-wifi.
LOCAL BEANS: Barefoot Roasters (based out of San Jose, CA) Yum!!

Epicenter Cafe – 764 Harrison st. SF – see their YELP reviews