Freedom of religion should not trump other freedoms, the way it does here in the US. In British courts, belief in the supernatural dpes not trump a child's right to health care; here it does. It also trumps a child's right to an education, if their parents' denying evolution can make the school not teach it. As it can. Or they can opt their kids out of classes that contradict their couter-factual beliefs, rather than requiring the kids to learn the actual facts.
That is the harm I fight.

Joe, I agree with you, but it doesn't answer the question of how an atheist comes up with their moral code, given the assumption that it takes deity to point out the difference between good and bad.

I, of course, challenge that assumption anyway. To me, it is a much more interesting question how a follower of deity, whose dogma preaches something obviously (to most of us) immoral, can come up with their own sense of right and wrong anyway.