Nope, 9/11 was not over religion despite what many (muslim and christian alike) would claim. It was about money and power and control - all three of which can be gained through religion but in this case the religion was just an excuse. This is the main reason why organised religion is something I do not trust while supporting personal faith and spirituality.
My personal opinion is this: I have nothing against any religion, you are free to beleive whatever you wish so long as you do not try to convince me that your way is the 'one true way'. Extreme dogmatism is, to my mind, wrong (one of the reasons I did not become a Catholic). I respect a healthy, open mind with regards to religion - an ability to question your faith and test it against all odds. Some protestant groups encourage this behaviour - interpretation of the bible in your own way not the way your preacher/priest tells you to interpret it. Others are insistent that their way is right and every one else is wrong.