Problem interfacing to external logic

Ok, if you have two modules you created then two data buses coming up to the top is normal (unless you wanted this logic contained within SOPC builder and not exported to the top).

Since your tools are relatively up to date, I recommend trying out component editor (it will do the same thing as interface to user logic plus other things). I used the interface to user logic "component" a lot and moving to component editor was easy since that functionality didn't really change.

Here's the documentation for component editor: http://www.altera.com/literature/hb/qts/qt...ts_qii54005.pdf (http://www.altera.com/literature/hb/qts/qts_qii54005.pdf)