I don't think such things have anything to do with one another. Yeah, our bodies are full of inefficiencies, superfluosities, and vestigialities (those last two are not actually words, I don't think, but damn it they should be), as well as some truly amazing mechanisms, some because of their simplicity and others because of their complexity. But in the end, it comes down to a matter of perspective. What we may perceive as imperfections in our "design" do not preclude an all-knowing creator, any more than things we are in awe of suggest one.
In other words, someone who already believes (or is inclined to believe) in a loving, omniscient God is of course going to view things in light of that, whereas a non-believer's wonderment, while perhaps just as intense, will be directed elsewhere or chalked up to other possible causes.
-J