Do you recall if you were using the Rift Travel button or the waypoints directly? I'm pretty sure I tried both... I created a fire surface to walk a character over, so maybe that made a difference?
I think i actually used the waypoint. The one in the east and then traveled to the north waypoint in the city. But im not 100% certain since i really didnt pay too much attention... it could be the rift. But the body traveled to the city with us. Ill check. ill let one character die and try it.
- edit -
Ok, this is how it works now:
I did the Braccus fight and Madora was left dead at the end.
I used the pyramid to exit through the blue barrier, (didnt have the proper pendant or a key) and she appeared with us in the next room. I went up to the church - she remained bellow.
I ran to the East Waypoint and ported to the city. She did not appear in the city. I tried rift traveling from waypoint to waypoint but she also would not appear.
But, since at the end of the fight i get the Star stone and the notification to travel to Homestead - i tried that.
Her body does appear in the homestead.
And when i travel back after that, she appears at all waypoints, both when i use Rift travel and just waypoints themselves.
(she is not connected by chain anymore but her body teleports all the same)
So its probably a bug.