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Originally Posted by BookCat
I did all of this, making sure books were both on the kindle and in the calibre library, and trying books in various formats, particularly mobi. Yes, you can add highlights and annotations to txt books.
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OK. I'll have to change that and get it tested.
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Although I downloaded the plugin, the version of Calibre which I have 3.33.1 already had a 'fetch annotations' function, which I was using. I added a column for 'Notes'. Whatever I did, I got the same result: a box flashed up, but nothing happened. So I gave up!
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I don't know how the built-in fetch annotations works for Kindles. But, there is no configuration for it, so I would expect it to add the annotations to the comments field.
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After spending hours failing with calibre, I tried Kindle Mate, which someone suggested in the kindle thread mentioned in my original post. Within a few clicks, I had the notes of every book on the kindle sorted into author and book. 
Calibre is great for conversion and management, but doesn't seem designed for annotation fetching.
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No calibre was not designed for annotation management. But, enough people are using the Annotations plugin with Kindles to make me believe it works. When it stops working, I get error reports and try to fix them. As the book was a TXT on the device, then currently it won't retrieve annotations. But, that is a simple change.