The Pope has gotten into hot water for quoting a medieval emperor in a dialogue with a Persian philosopher. The Christian asks the Muslim to "show me just what Mohammed brought that was new, and there you will find things only evil and inhuman, such as his command to spread by the sword the faith he preached."
As a result of this quotation, Muslim mobs have been burning churches.
So what was the Pope talking about? Christian philosophy believes that God is always reasonable. Muslim philosophy believes that God is beyond reason. The Byzantine emperor thought it self-evident that God was always reasonable – to suggest otherwise must be "evil and inhuman."
The Pope was not actually trying to slam Islam. He was really criticizing what he always criticizes – the secularity and materialism of the formerly Christian West. We, he said to his German audience, have lost the deep connection between God and reason that was taken for granted in Christianity's golden age.
The argument that the Pope was actually making seems reasonable to me.
The irrational and senselessly touchy Muslim mobs who are burning churches over the Pope's remarks are proving that it is not only secular Westerners who have lost the connection between God and reason.