It's not the 3-point takedown that is the problem. No matter what rules you have in place, coaches and wrestlers at this level always will find what they consider to be the most advantageous strategy to win a match.
IMO, the biggest problem is the application of the stalling rule. It absolutely was not applied the same in the finals as it was in the regular season.
Officiating is a challenging job for a variety of reasons and I understand they they may want to "let the wrestlers decide the match," but deciding not to call the rules the same way in the finals matches is at least as influential as they think calling the stall is.