The reformation was highly religious of course, but it was also about reading original sources, devolving power from a central authority, and allowing individuals to discover the truth.
Sometimes I think that the catholic church is like Leto II in Dune - ruling people so that they will rebel in a way that there can never again be a central power structure.
What you ignore is that the Church historically was a patron of Arts and Science, a preserver of history, works, documents and even pagan mythology. How many scientists has the Roman Church executed? One, Giordano Bruno, and it was not even due to his scientific views but rather his heretical views. Just as comparison, how many scientists has the Chinese Cultural Revolution executed?