I don't know if you're going to make any more changes, but Theocracy feels way too good at a point where religion matters most and is really frustrating to play against. Yes, you can check if an empire has adopted Theocracy manually, but it completely shuts you out of even using a Great Prophet to change the religion of an opponent, even if it's not an opponent who founded the religion themselves. I think it should be nerfed, maybe to instead give a free building in all cities that increases religious conversion resistance? But, in the meantime, I've removed that part of it from my own games, which fortunately seems simple enough to do.
Also seconding the request for a "Civ Names By Policies" addition to this! Civ Names By Policies is one of my favorite mods and I'd absolutely love to see an equivalent for this.