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@CKLJ001 - The short answer is no, i.e. there is no option for calibre to create hardlinks to the library copies of files when it Saves to Disk. And I doubt that's going to change any time soon.
When Books are Saved they may not be copies of what is in the library. When a book's metadata is edited the format files are not changed, only the library database is updated. When a book is saved to disk there's an option to update the embedded metadata in the saved format files with what's in the database.
AFAIK hardlinks only work on the same volume, and many people would save to a different volume, particularly if they use StD for backup purposes. And some of the file systems calibre supports don't support hardlinks.
BR
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