Links
No Answers in Genesis
No Answers in Genesis supports science and refutes the pseudo science of creationists. The site contains articles by Australian scientists (and others) that expose the fallacies of creationism.. NAiG has an extensive list of links to material supporting biological evolution as well as links to major creationist organisations.
Idea Center
On Creation/Evolution / Intelligent Design Theory
TalkReason
provides a forum for the publication of papers with well-thought out arguments against creationism, intelligent design, and religious apologetics.
Evolution Pages
This site contains essays and articles which present some of the scientific evidence for evolution. It also contains refutations and critiques of creationist arguments and creationism.
EVOLUTION UPDATE
Evolution Update-- News, Feature Articles, and Bestselling Books in Evolutionary Biology; especially for students and teachers of biology.
Debunking Creation Science
Covering the controversy of removing evolution from the classroom, and replacing it with a scientific version of Creation.
Honest Intellectual Inquiry - Science
Basically lots of links to scientific sites.
The Atheists Guide To Religion
The site features The Atheists Guide To Religion, a history to help atheists and agnostics understand (if not appreciate) religion. Explains why it is not simply an irrational idea to be fought, but an instinct to be overcome. From evolution to ethics, this has immense implications for personal development. Also covers the triune brain and why rational ethics cannot be based on religion.
Religious Tolerance
Promotes religious freedom, tolerance and diversity as positive cultural values, and attempting to explain the full range of religious beliefs in North America, from Asatru to Zoroastrianism, including Christianity, Hinduism, Wicca etc. Describing all viewpoints on controversial religious topics objectively and fairly. Covering everything from abortion access to equal rights and protections for homosexuals and bisexuals, including same-sex marriage, and dozens of other "hot" topics.
Tangled Wire
List of References for Departing from Fundamentalism
Debunking the main arguments of Christian fundamentalists.
Anti-Evolution and, links at Panda's Thumb.
Also see Larry Moran's blog