I fear it's because religion is man's attempt to reach God, and when he feels he has succeeded, he cannot abide anyone else's claim to have done the same.
Political tyranny is nothing compared to the social tyranny and a reformer who defies society is a more courageous man than a politician who defies Government.
Similarly, the Marquis is presented in this film as someone who would disturb the status quo and therefore must be kept imprisoned.

