Possible answer...
Ok - I haven't tried this yet (I'm at work - don't have time), but this looks reasonable to me. This presumes you've rooted your Nook.
1) On my rooted Nook, I can ssh into the thing and issues these commands:
cd /
find . -name "*.epub"
That gives me a list of all the epubs that are *anywhere*. I discover that Quick_Start.epub and User_Guide.epub are in /data/cloud_assets/books/userguids.
I also explored /data/data/com.android.providers.media/databases/internal.db with an Android sql browser. In the "products" table there are line items for those books.
I suspect that simply deleting those line items from the database products table is adequate. This might, however, only cause the books to start showing up like side loads. If so, it will also be necessary to delete the files I referenced above.
I will investigate this further later and, if successful, post a specific procedure.
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