The problem with a shotgun based offense/when you have a running football team is that you have very basic runs and don't add diversity.
Under center, you add different formations, different motions, different shifts, etc. You also have iso's, dives, power plays, stretches, tosses, sweeps, counters, etc.
In a shotgun offense, you basically have the read option, inside zone, outside zone, a counter play and that's it. It's also harder to get double teams in the shotgun offense. I'm not sure why, it just is. When you don't have a running QB, it makes it more difficult because the zone read becomes close to obsolete. When you have an above average offensive line, and not a great one, you are in trouble no matter what system you run. Then UT doesn't have a running back that can't make one cut and get to the second level for a huge run either (despite what we saw today).
Also, you give away which way you run with what side the TE is, especially since UT runs one TE sets almost all the time. This means no balanced line. Without a balanced line, the front seven can shift to the side with the TE without much trouble.