I actually like the way Calibre stores my books.

I even like the way it looks! Nice, simple, no stupid frou frou graphics that are only designed to suck in the tech-challenged (who think cool graphics equal latest tech)
It certainly beats I Tunes hands down for usability. I even prefer Windows Media manager (the XP version) to Itunes for managing MP3s and podcasts. The newer version of WMP has regressed. I wish there was a "Calibre" for sound files,