How to delete remote folders using FileZilla This demo assumes you already have FileZilla running on your computer, and are connected to a remote server. Now let's learn how to delete folders from a remote server. Locate the folder on the remote server that you want to delete. Right click the folder you want to delete... ... then click Delete. Click Yes to confirm the deletion. That's it! The folder has been deleted from the remote server. This is the end of the tutorial. You now know how to delete folders from a remote server with FileZilla.