...
As to your points. First, when it comes to these parents "isolating" their children, I really only take exception to you saying "who has the right to limit children's exposure to the real world and their education?" Parents do. It may not be a good idea, but it is their right. Would you rather give the government more power to tell parents how they should raise their children?
On your point of whether or not religion ever asks its followers to question the very basis of its existence, again I disagree. I cannot speak for every religion obviously, but I can tell you that at my church we tackle that issue often. While I'm sure in any religion you can find blind followers, the same could be said for atheism or any other philosophical or world view. As a Christian I constantly question my faith, why I believe, etc., and in doing so find answers I wouldn't have otherwise found. I do not believe religion and science cannot coexist, nor do I think you believe that judging by the tone of your post, but I do believe trying to limit something outside of human beings' comrehension by the laws that govern this world is pointless. Striving for knowlege is fine, I'd even say admirable, but admitting we'll never know some things is equally as admirable.