Bug using SMM?
Not sure if this is a bug or not but when trying to add mods to a dedicated server, sometimes it doesn't want to install or delete a mod. In this case it says a certain directory doesn't exist, even though it does exist. Could this be a bug of using SFTP? The server was added fine

Solution
If you can, and AMP's server files are reachable in a sane way, yeah, try that