Over at Behe's amazon.com blog, in the question and answer section, this question comes up:
In Edge of Evolution you indicate that some of the evidence supporting common ancestry is pretty persuasive. Yet a number of scientists have questioned some of the evidence for common ancestry. Do you think it is beyond the pale for them to do so? In your mind is it scientific to question common ancestry?
Behe's response is intriguing:
In my view it is certainly not "beyond the pale" for a scientist to question anything. Questioning and skepticism are healthy for science. I have no solutions to the difficult problems pointed to by scientists who are skeptical of universal common descent: ORFan genes, nonstandard genetic codes, different routes of embryogenesis by similar organisms, and so on. Nonetheless, as I see it, if, rather than Darwinian evolution, one is talking about "intelligently designed" descent, then those problems, while still there, seem much less insuperable. I certainly agree that random, unintelligent processes could not account for them, but an intelligent agent may have ways around apparent difficulties. [my emphasis] So in judging the likelihood of common descent, I discount problems that could be classified as "how did that get here?" Instead, I give much more weight to the "mistakes" or "useless features" arguments. If some peculiar feature is shared between two species which, as far as we can tell, has no particular function, and which in other contexts we would likely call a genetic accident, then I count that as rather strong evidence for common descent. So, if one looks at the data in the way that I do, then one can say simultaneously that: 1) CD is very well supported; 2) grand Darwinian claims are falsified; 3) ID is confirmed; 4) design extends very deeply into biology.
So objections that would most likely be raised by Young Earth Creationists against Common Descent are answered by Behe by Intelligent Design. As I said, intriguing. And perhaps a way of generating teleological hypotheses that could possibly be tested.
[Oh yeah. I still haven't figured out that link thingy. Could somebody help me out?]