Remove Empty Folders And Remove From A Db

ive got a site which auto creates subdomains and installs a script automaticly and inserts details into a mysql db. i have had some issues recent so have loads (talking 100s) of folders that are empty which i need to remove, and to remove the details of said folder from db also. any ideas how i can do this, using plesk control panel so removing the subdomain via plesk cli may be the best way in that respect but the db is external to plesk so that would not be edited