BYU had already proven that they were struggling to organize. Put pressure on BYU to execute in a loud and hostile situation. Using both time outs after first and second downs helped BYU more than Utah. I wouldn’t have called the second time out. I would have forced BYU to execute and not get another pre-snap penalty.
If Utah had three time outs, call a timeout after each play. But with only two, it was weird usage that allowed BYU to be completely organized.