>the clash between native folklore and Catholicism
I really felt this. I'm descended from a family that the king of Spain sent to California/Mexico and our families converted the local native tribes to Catholicism to essentially use them as slave labor. So little of their culture remains outside of certain tools to make food and a few of their stories, but not nearly enough. So much of my city has been stylized to mimic the architecture my community brought, but much of it has also been destroyed, with only the missions along the state and a small chunk here and there preserved. Seeing those ghosts built by force and not divinity as my ancestors would imagine still standing proud or used as icons has always felt... Conflicting.
I ended up greatly enjoying the Tapir quests and Nini's role. I could be reading too much into this, but I enjoyed that the Christian burial brought nothing. How Nini's vision had some truth to it: Breaking the curse was linked to the cruel deaths of those the bones once were, as well as the sunken church. However it was filtered through building a memorial of sorts honoring the beliefs of those that killed them. Nini couldn't see past her own gain and so her suggestion was tainted. She was more concerned with it as a holy vision allowing her to wash away guilt than an actual solution.
I'm glad the real solution wasn't an instant fix. It was just a chance for real change if the people could build something new. I imagine the salt mining that defines the region will eventually stop existing and then it will be up to the people in the region whether they curse the land for changing or bless it by adapting. Whatever happens they do unto themselves, and in that sense, the Tapir god made manifest their biblical beliefs.