If so, why?
I do not judge people by their beliefs. Everyone is free to believe in what they want.
To me, there are good or bad people. Everyone can have different beliefs and ideologies.
This can not be a valid reason for me to hate them.
This is perfectly good and legit philosophy of tolerance and acceptance towards different beliefs and viewpoints.
The problem is - these directives are not so clear for all Muslims. In fact they are often interpreted as being against basic rules of Islam.
Do you know how other religions are treated in Islamic countries? Go visit Saudi Arabia - where you can be killed for being non-Muslim.
Saudi Arabia is considered to be pinnacle of Muslim evolution, a model country other Islamic states should follow.
Muslims in general are warlike and violent people. Their religion teaches them violence is good. Toward athiests, toward people that try to leave the Islam faith, toward gays, toward thieves, toward women that are accused of adultery.
It's no surprise that in such environments, radical extremists could arise who take their violence to other countries.