Scrambling the puzzles isnt the issue in my experience, as a decent scrambler could get through 3-5 cubes in the time it takes most people to solve it meaning that with two or three people they can easily keep up with the average of about 8 timers at a competition and while not everyone jumps at the opportunity to scramble 6x6, if the event is being held at all it means that there are people willing to scramble.
I don't think it would be at all practical to have a MO3 and AVG5 at the same time so that said, if an average of 5 was made standard, the only way to not greatly increase the time it takes to complete the event is to make harder cut-offs and by making it an average of 5 event, you will almost double the number of solves, and therefore double the time spent on the event and the only way to keep the time down is to make cutoffs a lot tougher
I'm all for making 6x6 an average of 5 event, but doing so will make it a much longer event that will be harder to fit into schedules that already sometimes are hard to keep up with, meaning that holding the event comes at a cost of other events or rounds not being held, and probably making 6x6 a much less common event