I have been doing research lately to find Bay Area nonprofits that are using the social web so we can interview them for our vlog.  Thanks to folks tagging nonprofits' web sites with the tag "net2", organizations responding to my request for names, and my own research I have found 21:

Aspiration Tech  is using a blog, Flickr and RSS feeds.
Bay Area Vegetarians are using a Frappr map, RSS feeds and an iPod vegetarian guide.
Bay Area Writing Project has a blog as their homepage
Brainjams uses a blog as its homepage. You can see a video interview with them here.
Charity Focus has a blog.
Circle of Life has a blog.
De Young Museum has a podcast.
Electric Frontier Foundation has a blog.
Ella Baker Center for Human Rights uses MySpace to organize East Bay youth.
Green Museum has a wiki.
Interplast has a blog.  You can see an interview with them here.
Mother Jones Magazine has a blog and a podcast.
Newsdesk.org uses RSS.
People's Grocery has a blog.
Rainforest Action Network has a blog and uses RSS.
RLG has a blog.
San Francisco Zoo has a podcast.
Sierra Club has two blogs.
SFMOMA has a podcast.
SMASHcast has a podcast and a blog.  You can read Marshall Kirkpatrick's interview with them here.
Urban Sprouts has a blog.  You can see a video interview with them here, and read Marshall's interview with them here.

If you know of other Bay Area nonprofits using blog, podcasts, vlogs, RSS feeds, social networking, social bookmarking and/or wikis, let me know.  If you have contact information for someone we can interview there, please email it to me at bbravo AT techsoup.org.