Here’s the thing: She doesn’t leave you or her church. What now? Do you focus on the difference or on the things you still love about her? Do you still try to be worthy of her love in every other respect?
Lots of people in this situation don’t. She nags you about the church. You sneer at her beliefs. Eventually religion isn’t the problem anymore. It’s just the battlefield where you fight over everything else.
Eventually your spouse is not the person you thought you married. But if you’re willing to abandon the person you swore to love forever over a shift in belief, then neither are you.
You don’t end up getting divorced because of religion. More than likely you divorce because one or both of you couldn’t tell the difference between control and love.