@prothero,
In response to the interesting OP, and echoing Deep Thought: I'm really going to have to think about this one! But my first impulse is to answer yes, and for the very simple (perhaps too simple) reason that we are in nature, and we have reason and intelligence, therefore reason and intelligence are in nature. (This raises the question: who are we? Are we God?)
I am also still waiting for someone to explain the evolutionary function of consciousness, as opposed to some zombie correlate of consciousness which would serve the gene machines just as well (and involve a lot less discomfort for us all). An evolving universe full of
things and
stuff is still only full of
things and
stuff, no matter how far it evolves, or how long it evolves for. Where (and when, and why, and how) does actual conscious experience come into it?
Excuse me for sounding off about that (perhaps tending to nudge the thread off course), but this is one of those problems which evolutionary theorists seem to pretend to explain, without ever actually explaining, so it does at least have some tangential relevance to at least some of the posts in the thread.