There are a couple of bands that I really enjoy that are semi-religious. Matisyahu the Hasidic Jewish reggae rocker who constantly, almost exclusively, sings of god and such. Then there is SOJA which stands for Soldiers of Jah's Army, although the lead singer says the name has more to do with roots than religion.
Sublime mentions god quite often, and an early demo was called "Jah Won't Pay the Bills" which could be humorously interpreted in an atheistic way.
Refreshingly, Rebelution sings about keeping intelligent design out of our schools (at least that is how I interpret it; http://www.youtube.com/watch?v=YO08u0XzD_0
). Ironically there is also a Christian movement called Rebelution.
Do you listen to bands that sing about god or avoid it like the plague?