So I called the Ford dealership today and they didn't even touch my car since I dropped it off a day and a half ago. They blamed it on the cold weather we are having here and the amount of work they have. I canceled the appointment and will try to set up another in the spring because I have work and school starting soon again after my vacation.
Anyway, the main reason I wanted to post today was the things I found out about my SCT tuner. My tuner is the SCT SF3 device. This tuner just so happens to hold 10 custom tunes. This made it really easy to load on the new tunes to the device and keep my old tune intact. I also took JimC's advice and made a backup of my stock tune before doing anything to the device. Older models of the SCT device could only hold 3 custom tunes plus the stock tune.
2010 Ford Mustang GT - Hurst Short Throw Shifter, Roush Extreme Catback Exhaust, Airaid CAI, Bama 89 Performance tune