No, it's not. Toleration and freedom of religion doesn't mean they have to be elected to our governing bodies. So, in the name of liberty, you would prevent an American citizens from running for office because of his religion?
I'm sure you see the difficulty.
I see the difficulty but also the necessity when you understand their religion and goals. You can't trust what they say--lying to the infidels (Taqiyah) is holy writ. What you can trust is that moderate or extremist, they have the same goal--to turn Dar Al Harb (the world at war--the world not currently under Islam) into Dar Al Islam (the world that has submitted). Their tactics differ just as a logistician's tactics differ from a tank commander... but they are in the same company for a common purpose.
I would submit to you that we would never have elected a Nazi to Congress (or if we did he would have been rejected by the Congress) during WWII. The problem now is that we don't identify our enemy now as we did then. However, our enemy is having no problems identifying us.