I didn't have a problem with that since SOP is to conserve the timeouts for your own 2 minute offense. You hope the defense holds and forces the punt with over a minute left. If necessary, you use one of the two TOs when Vandy fails to convert on third down so they're punting away with ~1:42 on a stopped clock.
The timeout on first down really irked me when watching it in real-time, since that was a :15 differential SC gave up. That could have meant the difference between having to either block+scoop+score or return the punt for a TD, versus getting the ball on Vandy's side of the field with ~:20+ remaining and the old clock rules in play, which allow SC to take one shot down the middle to the TE that Vandy couldn't cover all night, then two shots into the end zone to tie.