I escaped via the sewers after fighting through the dungeon. I took Ifan to talk to Zaleskar for his quest, dismissed him, and then brought Sebille to talk to Zaleskar (in that order, for fear that she might kill him). I had already dismissed Fane while in the Hollow Marshes as well, to make room for Ifan.
After you escape, the remaining Magisters are supposed to flag hostile, which they did. The problem is that from just after the above point, Fane, Lohse, and Ifan are now missing from their spots in the Fort after having been dismissed some time ago. I ended up clearing out most of the Hollow Marshes with a party of three - up to the cursed ground area where Shriekers are being created - searching for them or waiting for them to turn up at their spots in the Fort. I figured this had something to do with a story point I hit, where maybe they start showing up in the next hub area or something - but Beast is still at his spot. I then thought that it might have to do with the guard and his dog being hostile and pathing in range of Lohse and possibly Ifan, but then why is Fane gone? Feels like I've scoured the entire Fort and most of the Marsh now, so what the fuck