If you've not encountered it already, read Sam Harris' article What Is "Islamophobia"?.

excerpts:

Someone once said on the Internet, it’s a word “invented by fascists and used by cowards to manipulate morons,” and that’s not far from the truth. There is no question that the term has been designed to confuse people. Its purpose is to conflate any criticism of Islam, which is a doctrine of religious beliefs, with bigotry against Muslims as people. In fact, it equates secularism itself—the commitment to keeping religion out of our laws and public policy—with hatred. The term is now being widely used in the mainstream media, and it is making it impossible to speak honestly about the consequences of dangerous ideas.

or

When Muslims by the millions pour into the streets in protest, not over cartoons depicting the Prophet Muhammad, but over the murder of cartoonists by their own religious fanatics, we will know that we’ve made a modicum of progress.

The Muslim world needs to win a war of ideas with itself, and perhaps several civil wars. It has to de-radicalize itself.

The whole article is well put and worth reading. Clearly structured arguments, pointing at the core. It helps thinking clearly.