Don't forget if you change the metadata in calibre, you still need to convert the file for the metadata to be written to the ebook (otherwise, the change only exists in the calibre metadata db). Just do a mobi to mobi conversion if you want to see your changes show up on the Kindle Home screen.
Also, the Kindle doesn't display series metadata. You either have to come up with your own naming/numbering scheme (and include it in the book's title) so the Kindle will sort them the way you want. Or you can look into calibre plugboards.
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