Here's the way I look at it:

The scientific method is our way of observing the world around us, and building up a set of rules that seem consistent with what we observe. It's an ever-expanding realm of knowledge that defines what is (relatively) certain.

Religion, on the other hand, is that which we take on faith - things that we cannot know via the scientific method, but we still accept to be true. This includes our observations that we use to generate our observations of the world. After all, I dare you to prove to me definitively that you actually do exist as an individual, and not a computer generated image that is being projected into my disembodied brain, along with the rest of the so-called universe.