Out of the box the component installs as a charm.
From that time on JDownloads does the work for you.
Just create your nested categories and JD creates the appropriate folder. Rename the category and JD renames the folder as well. If you want to upload files from a remote server, the best choice is to do it with the famous Extplorer and let JDownloads do the rest. It always has o look over your folders and if any file is changed JD changes the database entries. A lot of useful icons make your download section look modern.
For changing the layout you don't have to pay for subscriptions or templates. just copy the standard layout (which can't be deleted for safety reasons) and modify the arrangement of the placeholders as you want. That's it.
IMHO the best download component for Joomla! available. And don't forget to donate. We need this famous extensions for Joomla 1.6 too :-)
Thank you for such an outstanding JE and your support.