I don't think there is any important difference between fundamentalist muslims and fundamentalist Christians. The only reason they seem different is because most of the nations in which Christianity is the dominant religion have separation of church and state, whereas most muslim countries (Turkey being the only exception I am aware of) are theocracies.
Also, the majority of Sunni muslims these days are either Wahabist or strongly influenced by that ideology. Wahabism was a movement founded in the early 18th century by Muhammad ibn Abd al-Wahhab, an (in my opinion) mentally unbalanced fanatic who was probably a pawn of British intelligence, who used him and his insane ideology to destroy the islamic world. Wahabism proports to purify Islam of all 'innovations' that it acquired after Muhammad, but all it really does is strip islam of everything humane, everything beautiful, everything that makes it a tolerable way of life.
So yes, basically I agree that modern Islam is a serious threat to western enlightenment values like democracy, reason, science, and religious liberty.
But I think these values are equally threatened by fundamentalist Christianity. As far as I'm concerned there is no difference between radical muslims and Fundamentalists, except that the muslims are far more forthright in their declared goals and what methods they are willing to use in order to attain them.