Shadow, I have never heard of a Christian fundamentalist that would seek to stop a Muslim from praying, period, as long as it was not disruptive. I think your post does not reflect an accurate view of Christian fundamentalism, but maybe you need to define that term.
I would think that a secular-minded president would be far more likely to stop prayer, Muslim, Christian or otherwise in the White House than a Christian "fundamentalist" would.
But maybe, reading a little closer, you are talking about a Muslim president?
Well, I think a great many people, fundamentalist and otherwise, would not want a Muslim president at this stage in our history, 911 and all. I don't think having a religious view has a lot to do with it either.
I could see some Christian fundamentalists supporting a Muslim of a certain sort over a secular politician. Let's say the Muslim really is a moderate Muslim and supports the whole concept of absolute freedom of religion for the individual, but is supportive of the general concept of honoring God, and accepts strong moral principles to a degree, but not trying to adopt Sharia, then I could see a Muslim garnering support but at present, he would not get off the ground politically.
But central to much of Islam is the belief that societies must accept Sharia. I would hope that no one, Christian or otherwise, would support someone with those views.