One of the biggest conflicts is that Yoko Taro basically never provides completely wrapped conclusions in the first place, much less happy and satisfying completely wrapped conclusions. FFXIV, conversely, tries its damnedest to put a bow on everything. Endwalker was basically an entire expansion of putting neat little bows on everything. It's an incredible tonal dissonance when taken as part of the whole FFXIV experience, and on its own I think that fact alone was enough to put a stake in its heart for a whole lot of people. Even the ending isn't really an ending in the way that FFXIV continually provides and reinforces the expectation of. Something that we cannot completely solve, someway, somehow, however obliquely, however unexpectedly - how often does that really happen?
And yet, it's integral to the story and vital to both the message and the metaphor. That's something hard to reconcile.