bucky said:I more meant that it's confusing that God would allow such chaos, and that so many are convinced that their sect is the one true church. I suppose the former is subset of the problem of why God allows evil in the first place.
Why shouldn't God allow this chaos? For anything to be good, there must be an alternate state or states (evil). Therefore, God must allow this chaos IF there is to be any free will on earth at all. To disallow evil is to reduce humans to automatons. To force someone to choose the good against their will is hell to that person. So people are allowed to think whatever they like, however, they're not free from the consequences of the thoughts and decisions they make.
As for the "true church" issue, don't think too heavily into it. In the final judgement, what do you think God would care more about? Your personal character and behaviour, or the denomination you belong to?