The people in that part of the world have been killing each other since Cain killed Able. It's not going to stop and it has nothing to do with religion. Cain, Nebuchadnezzar II, and Ramses weren't Muslims. The Greeks who overran and occupied Israel weren't Muslims and the Romans who destroyed Jerusalem weren't.
If Israel went away tomorrow, the Sunnies and Shiites would continue killing each other. The Arab Spring and the current mess in Syria are primarily Muslims killing other Muslims like the drug wars in Mexico are primarily Christians killing other Christians. Most Muslims aren't murderous animals any more than most Christians are.