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From your description of what you did, it sounds like you moved it to the device as a txt file and as part of the move Calibre asked you if you wanted it to be converted. This is not a good way to do it, IMHO.
I think you should do any conversion BEFORE you send it to the device. - i.e. you'll then have the txt file and the epub file on your PC. Then transfer the epub file to the Nook either using Calibre or copying it with Windows Explorer.
This whole idea, which sounds like a really good one, may flounder if the resulting epub file is really large. But you'll know that after the conversion.
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