Just go to your maps folder, move some maps you dont want to edit with noggit to another folder, then go to noggit, modify your maps and after you finish the work with noggit put the other maps back into the folder.
Are this all continents. Not some raid or inis. Then move change them in DBC to get them in right menu dropdown.
No there is a type field in the map. Dbc. This defines if its a map, instance, raid or bg. Just change this i. Noggit use this field to fill the menues. http://www.wowdev.wiki/index.php?title=Map.dbcCol 3
Nice that it helped:-) Noggit will only work with 335a wmos as it is a 335a editor.
Will get much better in future.