Irrationality is bad because it fuels delusional thinking. If we have people voting who believe in magical sky faeries, we have a society suffering because of a delusion. Religion literally tears apart society, generating a scientifically illiterate electorate.
Separating religion from reality is only possible for someone who hasn't accepted the central dogmas of the prominent religions. Any form of irrationality isn't beneficial, and religion is even more dangerous because it combines the social aspect with the intellectual aspect and reinforces thinking that harms those of us who live in reality. See: homosexuality and abortion.
Illogic is inherently bad because it generates a false perception of reality. Would you rather live a life of delusion and be comfortable, or a life of squander knowing the truth? Movies like The Matrix build on that. Truth is valuable, because it allows us to create a useful morality and understand ourselves. If you don't value reality before everything else, you don't have real values.
The things we celebrate that are, at their core, irrational, are understood to be irrational. Religion isn't, at least not yet.
I don't think so, I think religion's end is imminent and we would all be better off without the bigotry the it has created.