I have permanently deleted a few ebooks from my Amazon account. I didn't have any problem removing them from Kindle for PC by syncing after they had been removed from my account at Amazon ("Manage Your Kindle").
I keep my Amazon books in "Archived Items" in Kindle for PC since I don't read books using the program. I only have K4PC to organize my ebooks into collections (I have over 3,500 ebooks). I use my Kindle device or Kindle App on my tablet to read.
If your ebook were listed in "Downloaded Items" in K4PC I could understand why it's not deleted from the program by syncing since those books are stored in the "My Kindle Content" directory on your computer. But since you have deleted the book from your Amazon account and the book is shown in "Archived Items" in K4PC I am baffled that syncing isn't removing it from the program.
Maybe someone else here will have another suggestion for you. Please do let us know if you're able to figure it out.
|