Naming the external drive folder same as a file folder

OK. I admit I'm stupid. I'm new to DiskXtender and when setting up an extended drive yesterday I named the extended drive folder the same as a top level folder on the disk drive. Obviously, the only folder showing now is the one folder. I want to remove the extended drive (media is already removed) but I am afraid that if I delete the extended drive folder, my real folder will also disappear. By the way, I disabled anything from happening on the system so no files are being moved, purged, etc.