The chapel is one, single room with one, single quest in it. That's it. The choir music is in that one, single room, and during one single other quest with Hermione. Then there is the one, small mention where the bad guys are shown to be Baal / Yahweh worshippers (so pretty sacrilegious for one, and not even entirely Old Testament). Finally there is the conversation between Hermione and Ron, which has nothing at all to do with religion, but which we can pretend for a moment that it does. That is absolutely it. That's the end of any """christian"""-inspired elements then. There is still 99% of the game that has nothing at all to do with religion. If I were proselytising, I should probably burn in hell for being so fucking useless at it.
Anyway, I again seriously encourage you to get help. I cannot be the first one in your life to tell you this, and I didn't appreciate your earlier sentiment that I'm only telling you to neuter you or whatever. However, if you are really not going to, I guess I can also look forward to you exposing me as a pagan proselytiser who's just making this game to shill paganism, when the gamestory soon starts on its Arthurian inspired parts