the file fids are symbolic links referring to /home/music/empeg/mp3s. I understand playlists consist of symbolic links, but shouldn't the original files end up in the fids directory at least once?
Playlists are not symbolic links, in the traditional sense. They are files containing a list of the FIDs contained therein. They don't appear as symlinks in the filesystem.
So, assuming that you're seeing concrete FIDs for the playlist files, and symlinks for the MP3 files, this seems like sensible behaviour. You merely need to ensure that rsync resolves the symlinks before copying them to the empeg. That way you'll get concrete music files and concrete playlist files.
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