Originally Posted by Hassat Hunter
Removing flags by right-clicking worked fine at Arhu's level, walking around town however, it does nothing. After loading it worked again.

I just loaded a save to check, and wasn't able to delete custom map markers. I saved the game and loaded my last quicksave, and had trouble placing map markers at the end of time (had to left click a multiple times for it to start placing flags, but after that it would work properly to repeatedly place flags), but could easily delete them (after which I might have to click repeatedly to place another). Teleporting back to Cyseal, the map markers worked fine; returning to the end of time, it was the same as before. I reloaded the save I made after first placing a bunch of map markers and failing to delete them, and had no problems at all placing or deleting map markers in Cyseal or at the end of time.