We can't prove quarks exist either, but all evidence suggests that they are there. Have you heard of something called Theistic evolution......it actually involves God. I ran onto this a couple of years ago because I had so many problems with my faith and my background in science. It seems to work, for me anyway.......sorry, I know that's kind of postmodern of me.
I have heard of it but haven't put much study into it. In the 70's I became interested in the Uranthia Foundation, History of the Universe. But after careful analysis I returned to my more traditional thinking.