My benz is back to normal. I took it to the MB dealership and they fixed Circuit City's mistake. It ended up being a $700+ fix to get my vacuum locks and factory alarm back to normal.
It turned out that Circuit City butchered up my wires pretty bad, broke two door actuators, caused multiple vacuum leaks, and wires were melted together at multiple areas. The MB Technician said I was lucky my car didn't catch on fire from the incorrect alarm installation.
LESSON LEARNED: Never go to Circuit City to have any alarms or stereos installed - they don't understand the complexities of a Mercedes! Go to the professionals or your local MB dealer!