The high school league that I coach in allows protests to occur. The only league rules are that the protest must be made at or as close to the time of the (believed) infraction, and that you cannot protest a judgement call.
The protest is heard by the league athletic directors and the league commissioner at a special meeting. Our league rule superceeds the NF rule which doesn't allow protests. This is similar to our (MA) use of the shot clock although NF rules don't provide for one.
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