Set theses NTFS Permissions for the service account that run the "Quick 'n Easy FTP Service" to the folder where you want deny the deletion of “root” or “Virtual Directory”.
Sample (on a directory where you have already read/execute permissions):
“[DRIVE]\[PATH]\[PHYSICAL FOLDER]”
Go to "Properties" => Select account => Advanced => Select account => Add the bellow permissions
Apply onto: This folder, subfolders and files
- Traverse Folder / Execute File
- List Folder / Read Data
- Read Attributes
- Read Extended Attributes
Add => Create Files / Write Data
Add => Create Folders / Append data
Add => Delete Subfolders and Files


Response of server when i want to delete the directory :
Response: 250 "/" is current directory.
Command: RMD MY_DIR
Response: 450 Internal error deleting the directory.