I don't think you can pin this qualification fiasco solely on Bernie.
From what I have read, Bernie gave them two options, this or his preferred option of adding penalties to your quali time based on where you finished the last race.
The teams chose the least worse option.
Nobody is going to boycott quali though, they'll just do their best, point out to every media outlet afterwards that it was a shame there was so little running again and then maybe it'll get sorted next time.