BI works just fine with EB. When you install BI, it asks you if you want a shortcut on the desktop. Say yes. Right-click on the BI shortcut (not the RTW one or the EB one) and make the target...

"C:\Program Files\The Creative Assembly\Rome - Total War\RomeTW-BI.exe" -show_err -mod:

if you installed to the default directory.

Also, make sure you install the BI 1.6 patch