Problems after Long Tube Install...

Last week I installed MAC Long Tubes and a Prochamber. The car has been running rough as I didn't have the 02 sensor extensions. The extensions arrived today and I'm still having the same problems. The car idles fun, but when in gear, it just dies unless I leave my foot on the gas. The check engine light won't go off either. Everything was properly reconnected. Any ideas as to what might be the problem?
Thanks,
Brian
 
Oddly enough, my g/f (who is clueless about cars) happened to mention resetting the computer and I realized I hadn't done that yet, so I did it a little while ago. Car still occassionally dies when I come to a stop when in gear, not quite as often though. Check engine light is also still on. Will drive it around a bit tomorrow and see how she is.