Hello HomeDog,
Sorry to hear about your problems with Filezilla. I'm not sure what you're viewing in FileZilla, but if you're connected via FTP, you will be looking at files. You might be looking at directory labeled programs, and then you're looking at all of the files for those programs, but those are STILL files and folders. You need to use the navigation options to change your view so that you go to the directory that you need to view.
Check out these two tutorials. One instructs you on how to use FileZilla to login to the webserver, and the other specifies how to transfer files:
Logging in to the webserver with FilezillaTransferring files using FileZilla
I hope this clarifies the issue for you! Please let us know if your require any further assistance!
Regards,
Arnel C.