I have never used a stop with C41, and Jobo has some notations in their manual that the final rinse (stabilzer) is done by hand after the process cycle is over. That is what I always do. I remove the drum, load a tank with stabilzer and put the reels in 1 by one removing them from the reel as I go.
The stop is mentioned in recent Kodak publiations in response to some who have gotten streaks going directl into the bleach. I have never had this problem, so I don't use the stop. It is not part of the 'real' 4 step process.