This is not to deny that there are versions of theism that do conflict with evolutionary biology. Young Earth Creationism is an example; it claims that God created life on earth within the past 10,000 to 50,000 years. But other types of theism are different.

The more evolutionary theory gets called an atheistic theory, the greater the risk that it will lose its place in public school biology courses in the United States. If the theory is thought of in this way, one should not be surprised if a judge at some point decides that teaching evolutionary theory violates the Constitutional principle of neutrality with respect to religion.

If you have evidence that C1 is a cause of E, and no evidence as to whether C2 is also a cause of E, then C1 seems to be a better explanation of E than C1&C2 is, since C1 is more parsimonious. I call the version of Ockham's razor used here "the razor of silence." The better explanation of E is silent about C2; it does not deny that C2 was a cause. The problem changes if you consider two conjunctive hypotheses.

Darwin and his successors have railed against the fallacy of confusing the current utility of a trait with the reason the trait evolved. For example, Darwin argued that skull sutures in mammals did not evolve because they facilitate live birth; the sutures were in place well before live birth evolved. Checking the chronological order in which different traits evolved in a lineage is one way to test an adaptive hypothesis; the fact of common ancestry is what makes that checking possible.

Methodological naturalism gives advice to scientists about what they should include in their theories. There is a second type of methodological naturalism that gives advice to philosophers, which I call "methodological naturalismp." It says that the methods that philosophers should use in assessing philosophical theories are limited to the methods that scientists ought to use in assessing scientific theories.

Evolutionary biologists often avoid using the term "race" because there is so much racist baggage that comes with the term. However, they are often okay with the idea that the genealogy of human groups within our species can sometimes be inferred in much the same way as the genealogy of different species.

Evolutionary biologists often appeal to parsimony when they seek to explain why organisms "match" with respect to a given trait. For example, why do almost all the organisms that are alive today on our planet use the same genetic code? If they share a common ancestor, the code could have evolved just once and then been inherited from the most recent common ancestor that present organisms share. On the other hand, if organisms in different species share no common ancestors, the code must have evolved repeatedly.