Actually, right after you defeat her there is a bit on gods' place in the world. And there are a few base conversations touching on the way doctrine has affected people1. And also how weird it is that your god is trying to kill you. Sanaki attempts to give the throne to Micaiah because of her divine right; and then Sanaki's epilogue mentions a shift to secular rule.
Albeit, granted, it doesn't compare to Xenogears. But Xenogears is directly about gods and existence and all that. FE10 is about a lot of other things before that and happens to feature a pair of goddesses as characters.
1 And from 4-3: Sanaki: I don't understand. How can you be a goddess and not know? I thought gods were perfect beings who knew everything!
Yune: Gods? Perfect? Where did you get that idea? You haven't met a lot of gods, have you?
Sanaki: Well, no. But divinity created life from nothing! Surely only perfect beings could do that!
Yune: We did create life, and can do many things that you creatures of flesh can't. But that doesn't make us perfect. It just means we can make mistakes on a much grander scale...
Re: probably derailing even further oops
Albeit, granted, it doesn't compare to Xenogears. But Xenogears is directly about gods and existence and all that. FE10 is about a lot of other things before that and happens to feature a pair of goddesses as characters.
1
And from 4-3:
Sanaki: I don't understand. How can you be a goddess and not know? I thought
gods were perfect beings who knew everything!
Yune: Gods? Perfect? Where did you get that idea? You haven't met a lot of
gods, have you?
Sanaki: Well, no. But divinity created life from nothing! Surely only perfect
beings could do that!
Yune: We did create life, and can do many things that you creatures of flesh
can't. But that doesn't make us perfect. It just means we can make mistakes
on a much grander scale...