billyray, open the book on your ereader within the Sony Reader Library software. Look in the lower left hand corner when the book is open. You will see an icon which is a find/search box. Next to that is an icon of a notepad which is how you view your notes. Next to that is an icon with an arrow which is how you export a file. Click on the arrow icon and it will go through the steps to save the file to your hard-drive.
Also the Reader Library software has help documentation within it. Sometimes their help is good and sometimes not... Just go to the Help menu on the far right of the window menu bar and give it a try if my instructions aren't clear. Hope that helps!
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