At the end of the day, it was never faith per se that stood in opposition to science; Franklin was ultimately as much a believer as Thomas Prince. Many people of faith - Unitarians, Quakers and those who, like most of the founding fathers, were deists - were prominent members of the scientific community. Rather, it was (and is) a specific type of belief that consistently finds itself at odds with science, one that is not found merely in America and is not limited to Christianity. It is the specific brand of faith that devalues reason and confers the mantle of infallible, absolute authority upon a leader or a book. It is only the priests of these sects, as Jefferson said, who "dread the advance of science as witches do the approach of daylight."
I agree with that.