Since I posted this and him and I talked about it things, in this area have been so much better. He really made an effort to not mock my beliefs and it has not happened again.

I am really really happy with this outcome. My boyfriend and I are very different and our interests are very different, but it's really nice to be able to talk to each other and both feel respected.
Bowhunt, that's really all you can do, see where the other person is coming from and respect that, hopefully your wife will do the same for you an in return you can both find a balance to this. I was raised in a very religious christian home. I don't beilve in god tho, so I'm really no help there. But we are all entitled to our own beliefs. I am sure because you were once involved in that religion that you have a good understanding about her beliefs. I think it would be much harder if you didn't have that experience.
I am still wishing the best for you! I'm glad that it sounds like you are both trying to work together.