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As far as I understand, Calibre can already collect tags (which would map to Kindle collections), and it can add/remove books on the Kindle. The part that Calibre doesn't know how to do is how to write out a collections.json. If you could document what you've learned about the format of that file and/or create a Calibre plugin just for writing it out based on Calibre's collection, that would be a huge boon to Calibre users.
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