I’m guessing this has something to do with the beta, but new characters (at least humans, haven’t tried the others) that originally had their hometown entrance and home instance waypoints unlocked no longer do.
Is it possible this is related to the Hall of Monuments thing? I can only speculate, but since the bug there seemed to be on character creation, and that part of it was fixed, was something removed from character creation that used to flag the waypoints? Just my $.02