Update:
After a long seven days without my truck, I finally got it back from the dealership yesterday afternoon. And to make it an even longer week without my truck, I was stuck driving a Ford Focus as my rental car. Being behind the wheel of that car just reminded me why I enjoy driving my truck so much and can't stand being in a small car.
I brought the truck in last Tuesday morning, and the Service Manager that worked with me said that if what needed to be replaced was 70% or more, that it would qualify for a re-man'd transmission. I got a call from him on Wednesday morning and he said that it would be tough to get to the 70%, but they would replace everything that needed to be and it would be rebuilt in house. While it was there, I also had the TIPM module replaced as there was a short in that that was causing the passenger side headlight not to work when the low beams were on. It would would though when the high beams were on though. While the TIPM wasn't covered under the drivetrain warranty, everything done the the transmission was covered. So in the end, I had somewhere around $3500 of work done on it that cost me my $100 deductable. It's so nice to have the truck shift nice and smooth like I remember it use to. I have been easy on it so far for the first 50-60 miles. Haven't done any hard acceleration from a stop light/sign. Really haven't got it up over 2k RPM. And I won't put any tune back in the truck for the first 100-150 miles. I do miss having the tune in it though. All in due time, right?
Going over my receipt, this is everything that is listed that was replaced:
-Pump
-Band
-Clutch Pack
-Plate O/Drive Clutch
-Disc O/Drive Clutch
-Seals
-Snap Ring
-Spring Direct Clutch
-Trans Output Sensor
-Full Flush of Trans/Trans Cooler