I haven't seen it before, mayby nobody has noticed it (yet) but a lot of the long questlines were confusing and/or broken.
BEWARE OF POSSIBLE SPOILERS:
I had a quest where I had to go to Hasongo (Main stroyline I think). I got there because I was just exploring, had a short dialog with Eder and immideatly left. When I talked to certain NPCs after that (I think it was the queen or the prince) they reacted like I alrady had finished my quest on Hasongo (relighted the Adra pillar, thank you, blabla etc.).
I even had a fleet of ships somewhere before I did the quest that should have triggert it.
That happend with a lot of quests through the whole game (finished it anyway). I had dialoge option that shouldn't be there at that time.
I encountered it first in The Gullet with the Gangster Boss (Duke? Drake? something with D with the quest for the, waht was it, Shell(s)?)
I already had the one from the ruins and when i told him that I didn get the quest for the 2nd one. Th questline seemed to stop there, It felt all kind of wrong.
I could add a savegame when this helps, if someone can tell me where I can find it :D