She didn't waste any of her time getting her kid away from Scientology and getting her family back to Catholic roots did she? If that is not a telling sign I don't know what is.
Also, purely speculation on my part but it's also odd how fast they settled. All reports said that Tom was devastated and shocked and that he was begging her to fly out to him. So, something tells me that that her not bad talking Scientology and Tom was part of the settlement. She got what she wanted in terms of primary custody and taking control of Suri.