I could theoretically conceive of calibre being extended to allow a user-configured metadata template as an alternative to {author}/{title} ({id})/{title} - {authors}.{FMT} for the internal structure.
But the people who actually care (and insist they have the skills, even) are perfectly happy complaining bitterly rather than doing anything about it, and raising philosophical objections against doing the work themselves -- go figure...
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The chances of calibre being changed to accommodate a willy-nilly mess are zero to none, of course.
One of Kovid's mission parameters I believe is to avoid the support mess that occurs when hapless users (of which there are many) are encouraged to touch the files in a database.
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