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The save to Disk option is NOT a suitable Calibre library backup as it can change eBook files during the process, and does not back up all files. As a result it is also relatively slow. The simpler process of copying the Calibre library folder and all its contents is the correct way to do it, and there are plenty of Utilities around that can achieve this - many providing differential backup capability that can improve its effeciency.
As for backing up the Configuration folder this is more interesting. As a general rule a Configuration folder is OS and System specific so any backup of that folder needs to be used with caution. It makes senses when restoring a crashed system but may not make sense when moving Calibre to a new system. Perhaps a more obvious way of finding ithe Configuration folder location rather than diggng into Preferences might be desirable to make it more accessible to the average user.
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