It’s up to interpretation. I haven’t played through the entire game, but my experience is that generally on the surface it is extremely pro-Christian/Catholic in comparison to anything else you’ll find in mainstream gaming. It presents a historically accurate representation of how core the church is in the lives of the average person in the medieval era. Churches are in every town, everyone greets one another with phrases like “God be with you”
Beyond that surface value, some questionable and outright anti-catholic/Christian themed emerge. Some example side quests include carousing with a hypocritical rural priest who drunkenly rants a bunch of anti-Vatican rhetoric. In order to complete the side quest without jumping through a bunch of hoops, you have to repeat the rhetoric at mass the next day, which seems pretty heavy handed.
Romance options have a heavily modern slant to them as well. You’re given a few romance options, but they’re all treated like modern hookup culture. Marriage is not an option, and sex happens after a small handful of fetch quests. Once sex is achieved, the romance option magically turns into another NPC who is limited to a small set of preset greetings. Even romance options in games like GTA and Skyrim have a sense of permanence to them should you wish them so long as you want them to continue. This game slams the door on them though after the sex cutscene completes. The fact that you don’t even get an option to continue in some capacity seems like an endorsement for casual sex culture.