For the record I'm going to be extremely, existentially, burn-it-down angry if they play this with Morag in Xenoblade 2. It's my biggest fear about the game.
There's been no implications that they will, they haven't even taken most of the low hanging fruits with Pyra, but my god if they do...
You do not make a character with such a jaw-droppingly iconic entrance into the story and then ruin it with that shit later on.
You don't.
You can't.
I can tolerate Pyra, between how much the game paradoxically stumbles over itself to minimize the blatant fanservice and the fact that I actually like elements of her design a lot (the colors are great, I love the techno-anime aesthetic in general, and the scarf tails are super rad) despite the fact that she has no clothing on her back, but if they ruin Morag I'm going to riot.
Oh yeah, I'm praying that Morag doesn't get the shaft in characterization later on because that would instantly turn me sour on this game.