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Metadata is not embedded within the library copies of a book, unless you use Embed Metadata or Polish Books. Metadata is however embedded within the book when you export it using Save to disk or Send to device.
A separate problem is that MOBI/AZW3 does not support arbitrary metadata types, though EPUB does -- I am guessing since have listed Kindle for PC as your device, that you are using MOBI/AZW3?
Use the second option in the dropdown under Add books, in order to import books together with the metadata.opf, which contains all of calibre's metadata.
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