Are either your little ones interested in princesses? CRT is a character meal, featuring princesses. BOG is not a character meal per se, although the Beast is usually available to meet guests after they've finished dinner (he doesn't come around to the tables). At CRT, kids are also given a wishing star and either a sword or wand (adults can request one as well).
In terms of food, neither place really wowed me, but I think BOG had the slight edge.
In terms of atmosphere, that depend a lot on where you're seated in BOG and how much you like Beauty and the Beast. The West Wing is the most impressive of the rooms and really makes you feel like you're in the Beauty and the Beast movie. It's on the dark side and there are storm sounds periodically (which can be frighting to some). The main dining room, where the majority of the tables are located, is supposed to be themed after the Beast's Ballroom. It nice enough, but it mostly reminded me of a large conference center dining room or banquet hall. Aside from a few touches, I really couldn't say it reminded me of Beauty and the Beast very much. In terms of CRT's atmosphere, I think they did a good job theming it to the restaurant. I like that they have a little introduction before each character comes out. I would say it's a toss up between CRT and BOG's West Wing, but CRT's atmosphere is better than the BOG's Ballroom. Because you can't request (or at least not consistently) which room to be seated in, I would give CRT the edge here.
Overall, if you have a little one that likes Princesses, I would go to CRT. If your kids are ambivalent about princesses, but price isn't a factor, I would also select CRT. My general preference is to have CRT for dinner and BOG at lunch (because you can usually select which room to be seated and I actually liked the lunch food better).