Bodies Like Ours
Online forum providing information and peer support for people with atypical genitalia.
http://bodieslikeours.org/forums/

Intersex Society of North America
ISNA is devoted to systemic change to end shame, secrecy, and unwanted genital surgeries for people born with an anatomy that someone decided is not standard for male or female. They urge physicians to use a model of care that is patient-centered, rather than concealment-centered.
http://www.isna.org/

Transgender SF
Group for transgender persons, cross-dressers, transsexuals, and their partners. Has referrals database of trans-friendly providers. Although many people in the intersex community believe that transgender is an entirely separate category from intersex, TGSF provides community, support, and education for transgender persons and their partners, and explicitly include intersexed people in their organization. Monthly meetings last Thursday of month in San Francisco, CA, and occasional educational programs on Wednesday evenings.
Hours: 24-hr announcement/message. 7-10PM Mon-Fri to speak to a volunteer
(415) 839-9448
http://www.tgsf.org