How do I make the Level Editor prefer my FC directory?

[Your Computer]

Well, there are ways to circumvent having your development environment load the out-dated files when loading them in game (indeed, you wouldn't have to worry about this come release time, you simply need the level editor to register the file name, since you wouldn't be distributing the old files anyway). For example, the game tends to load files in the order the directories are listed in the resources.cfg file. So, by placing your directory above the Amnesia directories, the game should give higher priority to your FC files and disregard the out-dated files that you place in the original Amnesia directories.

If that doesn't work, you can always give symbolic links a shot (i.e. assuming Windows Vista or later).