Chariot's Wheels
http://www.chariotswheels.com/
Web site of "a Qabalistic, non-denominational Gay Pagan with Chaoist leanings," with articles on gay spirituality, solitary practice, and the author's own spiritual journey. Still a fairly small site, but worth checking out.
Gay Spirit Visions
http://gayspirit.home.mindspring.com/
An organization that grew out of the gatherings of the Radical Faeries, a gay men's pagan tradition, but seems to have evolved in more of a generically new age direction. Event listings, articles and keynote addresses from past conferences, and a collection of back issues of their newsletter.
Gay witch net
http://www.gaywitch.net
A personal site by a gay male eclectic witch. The Gay FAQ and most of the materials in the Witchcraft section are pretty basic, but some of the rituals are interesting, and there are some thought-provoking articles in the Musings section.
Gay Witchcraft
http://www.witchvox.com/xgay.html
The gay and lesbian section of the fabulous Witches' Voice site. This collection is now considerably larger than it once was, with nearly 20 articles at last count, including one by your humble webmistress...
House of Saadaya
http://www.angelfire.com/journal/saadaya/
An eclectic queer spirituality site that deals with issues ranging from the role of gays and lesbians in Asatru to Christian eunuchs. Most of the mythology and history should be taken with a large grain of salt -- a lot of it's the same kind of lost-golden-age romantic revisionism you find on many feminist spirituality sites -- but there are still some interesting ideas here. The author also runs a queer spirituality mailing list called Androgyne.
Rainbow Wind
http://hometown.aol.com/RainboWind/
The online version of a now-defunct gay and lesbian pagan zine. The site organization is rather confusing, with content spread out over three different sites, and most of the articles are fairly short, but there's some interesting stuff nonetheless.
The Wellhead
http://www.thewellhead.org.uk/
Easily my favourite site on this topic, and one of my favourite Wiccan sites altogether. The Wellhead is maintained by an Alexandrian gay couple in the UK, and accordingly comes from a more traditional Craft and less new agey perspective than most other gay pagan sites I've encountered. The site is not overly large, but the content is very high quality - thoughtful and intelligently written.