I dunno, I don't see this as that big of a deal. The point, as I gather, is to learn (through practice) how to defend your faith. I would hope that in order to get a good grade, you have to do so rationally and respectfully. What's so wrong with that?
Do you really think it could ever be a bad thing to let people have their beliefs challenged publicly, and force them to defend themselves? Sure, a traditional debate forum (or ANY face-to-face contact) is a more productive venue for this sort of thing than random internet forums, but I sure don't think it's without value. From the point of view of the student, it makes you seriously think about what you believe, why you believe it, and how to make it make sense to someone who sees the world differently. How could that be a bad thing?
I am, of course, giving the school the benefit of the doubt and assuming that this part of their coursework is monitored and graded not only for completion, but for quality.
Or is all of the brouhaha only because the people doing this are ID supporters? What if it was the other way around, and a decidedly antireligious biology or philosophy department was asking students to defend evolution on "hostile" websites?
I guess all I'm saying is to THINK about this for a bit. Is it really that big a deal?