There is no word in the english language that describes malicious anti-religious zeal (in the way that 'Bigotry' describes malicious religious zeal). That's led to a sort of societally-acceptable...... 'persecution,' I guess, I don't like that word, but 'discrimination' doesn't fit either. 

What I mean is, Homophobia is BAD. Racism is BAD. Sexism is BAD. But 'generalizing religious people according to negative stereotypes and passing judgment' isn't even in our lexicon. We can't even have a conversation about that, because there isn't a word for it -- unless we're talking about 'Mooslims,' because Islamophobia also has racial implications, which puts it on the radar.