I hold to the humble view that the natural sciences are in trouble and that they will build a very high tower over the next 100 or so years before they discover that it has no foundation. The following quotations offer clues as to why I believe this.
A.N. Whitehead, co-author with Bertrand Russell of Principia Mathematica says:
There is but one source for science: It must come from the Medieval insistence on the rationality of God.
Heaven forbid that God should hate in us that by which he made us superior to the animals! Heaven forbid that we should believe in such a way as not to accept or seek reasons, since we could not even believe if we did not possess rational souls
I pulled these quotations out of a sermon by a British preacher (a priest, I believe), in which he discusses the relationship of religion and science and the lies some PR men for the sciences (Voltaire, Dawkins, etc.) tell about that relationship. Read it here