Yeah. It only counts if you're actually part of the church.
Though it would also be helpful if you could put down any factions your character used to be a part of, either in the history or under the faction's section with a strikethrough or an "ex".
My question about Yamato being part of the church. In fact, if anybody has a character who came from the church, could they write that down under their Faction section? That would simplify things