I think this happens with any of the companions if they have a low opinion of you. On my first play-through as Ifan, Lohse and Red Prince rejoined me when I found them on the ship but Sebille (who I had gotten multiple -10 or -5 approval with during our previous conversations) just gave a me a line about it being time to part ways. She also showed up as a spirit in the Hall of Echoes after escaping Dallis.
