Agree he was sacked a lot, but don't remember a hit that could be considered roughing. The 2nd Mahomes roughing was obviously a bad call. The 1st was helmet to helmet contact. It was a weak call, but by rule the correct call.
The overall issue isn't that the refs overly protect Mahomes, but that they're overly protective of all quarterbacks. Any contact with the helmet is an automatic flag and that shouldn't be the case. Not all helmet contact is created equal. Sometimes it's simply a defender trying to deflect the pass and they graze the helmet with their hand. Flag! That's just football nowadays unfortunately.