I think that things like this can really only be approached with a long view in mind. Progressions and regressions are always happening. We're going through a rather massive regression currently, but any belief system that refuses to change according to actual facts is basically at war with reality itself, and doomed to failure by their own inability to adapt.

As far as an actual approach, it should be social allelopathy. There's a good reason this christofascist regime is so bent on attacking education - it's because their crazy beliefs have a tendency to dissolve under any scrutiny. The more we can provide robust, truthful education to all, the more it buffers people, if not necessarily to atheism, at least to religion that can coexist with common sense.

And that goes for religious institutions to. Support what you believe. If you're atheist, there are groups who organize around that.