Once the book is downloaded from Amazon to my PC with Kindle for PC I close the Kindle for PC and open Calibre. Right click on the "Add Books" icon (upper left), then navigate to the Kindle for PC library -- in my case (Windows 7) it's My Documents/My Kindle Content. The book names don't make sense, but you can order them by the "Date Modified" field to get the most recent download to the top of the list. Double click it, and it should be imported into Calibre (and cleaned by Alf).
Good reading!
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