Really the main issue is that Muslim 'Moderates' in most countries still have high percentages of people who support things like Sharia Law, Revenge Killings and that suicide bombings can be justified, and just don't really bother to out or punish the radical elements of their religion.
Wheras a Christian group doing similar things is ostracized and outed immediately.
If 'moderate' muslims were more willing to fight against the HORRIBLE RADICAL MUSLIM TERRORISTS WHO DON'T REPRESENT ISLAM!!!!, like how the Kurds fight them, instead of just quietly ignoring it until yet another terrorist act happens and then crossing their fingers and hoping that it wasn't perpetrated by muslims and then crying about discrimination when it TOTALLY IS MUSLIM TERRORISTS AGAIN, maybe it wouldn't be as big of an issue.
/shrugs
That's my thoughts I guess.