Ah. So it comes down some random decision that Jediism is "not offensive" and the Christianity is "offensive". There goes the atheist meme that those 2 beliefs should be treated the same I guess.
I suppose one difference is that Jedism and Pastafarianism are widely acknowledged as parodies. As much as adherents try to keep a straight face while snickering, no one, including said adherents, believe those religions are real. While there might be some among Christianity, Islam, whatever who don't believe in those religions, most in the religions actually believe there is a God and that the Bible/Koran/etc are true.
Meanwhile, Scientology falls somewhere in the middle. Started as a scam, almost certainly believed to be a scam by the higher-ups, while many on the low rungs, at least in the early few years, probably believe it's real.
I'm not sure if that really has anything to do with the theater decision. They'll know Jedism is a joke, but if it came to Christianity, someone might likely think that a number of folks actually care about this one way or the other.