I teach science, and I teach it without apology. That being said, when a concerned student tells me they can't get behind the science, but they are still worried about their grade, I help them out. They can answer a question by saying, "The text teaches that the Earth was formed by.....However, I believe...." I tell them as long as they show me they have absorbed the scientific theories/data on the Earth, it does not trouble me in the least they do not accept it.
When it comes to State tests (multiple choice) I tell them they have a decision to make. Do they answer by what the State calls correct, or do they answer by what they believe is correct. Up to them.