If you think the systematic, falsifiable, peer-reviewed, and evidence-based pursuit of knowledge and understanding is the antithesis and enemy of your world view - it probably is. And it's also revealing a whole lot of not so healthy things about your ideology, too.
Look, I'm not saying Hegelian synthesis is *always* an option. No amount of goodwill or "middle way"-ing will ever bring back and substantiate the hypothesis that there was a global flood, that the earth is no more than a few thousand (or ten thousand) years old, that languages were fractured into different families at Babylon, or that an Egyptian pharaoh (suspiciously un-named) drowned after a Hebrew god parted (and then closed) the re(e)d sea.
Regardless, I don't think that the radical, diametrically opposed ends of the world view spectrum (i.e. religious fundamentalism on the one hand, and naturalistic anti-theism on the other) are the only viable options. Quite the opposite, in fact. I'd say that the only thing such radicalism achieves is that people are put off by BOTH extremes - and this should be especially disconcerting to adherents of proselytising world views. The safest way to drive most people away from Christianity is to insist that its cosmology clashes with well-known FACTS about the observable universe, history, and biology. Oh, sure, you'll gain a few nutcases, just like the flat earth movement. There's always a market for conspiracy theories, since some people love to feel like they are a) in possession of special knowledge, b) exalted above the "ignorant masses", and c) opposed by an evil mainstream (potentially led by a shadowy cabal or clandestine group).
So, while I find theism to be a pretty silly, anthropomorphic hypothesis about the nature of reality, I do think I could get along with the saner parts of the spectrum. Religion is not the arch-enemy of mankind - at least not in all of its forms. Most people are pretty decent, sometimes in spite and sometimes because of their world views. If we stop seeing them as "them", and start embracing them as "one of us", that'd be pretty neat. And also pretty much in line with the true Christian spirit, I might add.