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Cute reply, but obviously simplistic. If the professor is an atheist, the presupposition of the class is that all the religions studied are false.

Maybe true, but the same concern exists no matter what his religious beliefs. If Christian, he believes Jesus is the messiah, and that Jews and Muslims are flat-out wrong. If Hindu, he believes those who don't believe in the thousand or so deities in his pantheon are simply misguided. Only a professor who truly somehow "believes in everything equally" could hold the level of impartiality you desire.

Frankly, an atheist teaching about religions in good faith seems a fine choice. Note that I am not claiming this professor in question necessarily acts in good faith.

Aw heck, I agree with you, I think. I'm just a Christian guy who thinks that the spiritual/religious impulse in humanity has thousands of years of attestation, and I hate to see that fact obscured by a presupposition that it is either false, misguided, or ludicrous.

And this prof has tipped his hand with his previous email. I don't think Christianity is likely to be represented as much more than a straw man.