If we talk in a religious way the main problem is that it's written in the Quran that some kind of people that belief in some kind of religions are like impure and have to die (christian for example), I was watching just yesterday a famous critic in my country that was talking about this topic, he was saying that we've to lucky and find a moderate muslin all around, because if we have only those really chained to what the Quran says we are pretty dead.
I don't think that religion is the main problem.
Main problem are people who interpret religion in their own way, because of their personal goals, hatred, intolerance etc.
For example, In Bosnia we have many Muslims and they lived in peace there last 100 years, together with their neighbors from catholic and orthodox church.
Because of the war 1992-1995 some of them have been radicalized and even went to the war in Sirya but most of the Muslims still respect other religions and live in peace with others.
Also, as I understand it, Quran also respect Jews and Christians and even talks in very positive way about Jesus, his mother etc.
So, Muslims should just read their holy book and practice it.