*SPOILERS* Terrified for the remaining Scions!

[ItMe]

Final Fantasy games have never shied away from consequences, so hopefully FFXIV starts returning to its roots instead of encasing even minor characters in ridiculous levels of plot armour.

I don't know what "roots" you mean. With a few notable exceptions

mainly Aerith

Final Fantasy games generally don't kill off main characters or party members. Even in FF4

everyone that died either faked it or comes back to life by the end.

This is is MMO, but the Scions are written and regarded as if they are party members. And even if one were to try and dispute that they can't argue the Scions are main characters.
We shouldn't be surprised they're not going anywhere.