I think Aldiko handles B&N epubs I believe, and I know it handles overdrive content
Also some people on XDA states this works :
[FIX] Re-Registering NookColor with B&N
I hope this helps everyone! I followed the directions for Auto-Nooter particularly the part where it tells you to De-Register your device with B&N. After auto-nootering there did not seem to be a way to relaunch the app that allows you to sync with B&N. Here is how I get re-registered:
Open NookColor Tools
Tap All Settings
Find the options listed "Wireless"
There is 3 options for Wireless, choose the second one in the list.
This will open up the Barnes and Noble starting wizard.
Press Continue with setup, and it will ask you to login to B&N or Create a new account.
http://forum.xda-developers.com/show...932145&page=41
Good luck