AFAIK it’s still pro-atheism. And Ron Paul was basically the only Republican not in bed with the Halliburtons of the world, which was considered progressive in 2008.
I think a more fair characterization of reddit at that time was firmly anti-theism. I'm not religious, but I definitely remember those days from when I was still the primary demographic of Reddit (early 20s male in college, hyper-jacked into to news, IT-worker and programmer, science-focused, etc.).