As far as I can tell, it appears for: Teleports - /wild, /nether ect Build/Use/Container/Move flag notifications (You don't have permission to...) When you try and build on a road in town RTS Parts of /res info
I do believe it is Aikar's fault, but he is aware of it. Bear with this minor annoyance till it is fixed... (Not to throw Aikar under the bus) lol
Enter my Residence at 203... Tell me if you get something weird there - that is the only one I experienced troubles with (it could also have to do with me claiming the residence during this issue)
It's a bug with the 1.3.2 update.. Apparently config files can no longer have color codes in them and its causing the entire file to not load (so not my fault =P) I will be updating the code to workaround the problem for now tonight and roll the update out.
I've been having a similar problem. When I set my residence flags to the default, it says: "<missing language key: FlagsDefault>." Is a missing language key the same as a missing language file?