I'm learning all kinds of things about BSG I didn't know.
Well, if anybody is an 'unbeliever' about the religion/BSG connection, just Google.  I found more info and discussion about it than I expected.   I guess I'm not the only one who picked up on it while watching the new series 

There's an interesting article/interview 
here about the Cylon's religion.   The article, unfortunately, makes me think 
jbox might be correct when he said:
I know the cylons have a plan. I remain unconvinced that the writer really has one though.
I was a big fan of the X-Files at one point, but then really felt like they were just making it up as the went along and it totally ruined it for me.  I felt like I had been tricked into believing that the writers/creator knew what they were doing when, in reality, they didn't.
I hope I don't grow to dislike the new BSG in the same way.