Sorry for reviving this thread, I know I haven't posted in here for awhile, but I just saw something in a video that might relate to this theory, so I wanted to mention it.
Chrono Trigger used placeholder sprite graphics hidden on the maps for various scenes, some of which didn't make it into the final game, but are still hiding behind graphics in said rooms.
In the scene where Schala uses the pendent to open the door, if you remove some of the game's layer graphics you'll find Queen Leene's sprite along with an attended standing behind the door.
I thought this was interesting, as it potentially links the two characters together in the original game.
https://youtu.be/2Ja3TdujlDg?t=12m44s