Our minds very easily get things confused. That's why we like using methods. Science is a method. Rejecting science is fine, but if you want to explain anything you have to replace it with another method, or all you get is a mess. Which is quite the contrary to any deeper understanding of anything.
I do agree that it is very important to look beyond science, because if we didn't science wouldn't evolve at all, which goes against the very nature of science.
How did you reach the conclusion god lives in the metaphysical? If not by using the scientific method then how? Deduction? What did you deduct from what?
Don't confuse the western medical scientific tradition with science in general. There's plenty of medicines that we know do the job without us knowing how they do it. I have plenty of respect for both holistic health and science. I see no conflict.
To expand my annalogy. If we chew on a twig and it cures my hang-over even though science says it shouldn't, that's no evidence at all that the Bible is correct. All it means is that science has more to figure out.
Arthur C Clarke said the profound words, "Science we don't understand is indistinguishable from magic". Just because we don't understand how something works doesn't imply magical and mystical intelligent beings in the woodwork, or any other diety.
But the people who belong to an organised religion aparently want this fourth layer of govornement. My slave is atheist and aparently wants another layer of govornement in her life. I have no problems with religions as such. Only when they make stupid interpretations of the world, they have no basis for making.