No. If Jimmie is the best driver he is going to win championships and shouldn't be punished.
I do think they should change the order of the races from year to year. Even Jimmie admitted that the tracks included in the chase favor him, I don't believe NASCAR did that on purpose, but it IS a fact. If the order of the tracks were randomly chosen each year (except for the Daytona 500, that should always be the first points race), but if the rest were randomly chosen it would eliminate the possibility of the order favoring any one driver year after year.
I am a Jimmie Johnson fan, I believe Jimmie would still have won the four championships if the track order was random, however it would give the critics one less thing to complain about, and I'm all for that!