Nothing wrong with asking those questions in class, either. The teacher should be able to explain why they are not 'real' questions, right?
Sure, students should be free to ask such questions, and biology teachers should answer them seriously with the presumption that they were asked in good faith. If the teacher is competent, it shouldn't be a problem. A muslim student asked such questions of my biology teacher when I was in high school (it was private), and she answered them in just such a manner. Of course, asking for competent teachers in modern day public schools may be asking too much.
Wells' "10 questions to ask your biology teacher" are so easy to answer it's not even funny. It should take no more than 10 minutes of class.
What I oppose is teachers bringing up bogus questions and spending any significant amount class time on them. The school year is short and there's enough material to cover as it is.