Okay, then I think it's as easy as deleting the books from the eBook Librarian folder on your computer. (I would disconnect the eBookwise from the computer first).
If you want to keep them, just not see them on the Online Bookshelf, I think all you have to do is move them out of that folder to one of your choosing.
If you can't remember where that folder is, open eBook Librarian and click on Settings. That should show you the default folder for creating books.
I don't often use Librarian (I have GEB Librarian) to load my eBookwise, but if memory serves me correctly, the "Online Bookshelf" is just tied to that default ebook folder.
Good luck!
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