Yea I was wondering about the colour scheme thing too.
Agree with it not being Madame X, and I don't think it would even be on the same side as Madame X, because wasn't it Madame X who reverted things when the bomb went off the first time? this would suggest that they were opposed to each other.
I'm really looking forward to more info on the church of Theolia stuff in general, as I see them becoming a major faction. want more info on gardevoir, Anju/Angie, the intro of the game, and a possible connection between Indriad/Jenner and Marianette/Melia