Yeah, when you're a PG, passing doesn't matter, right Glove?
If you're "a better passer", which Stockton was by a MILE (think Marbury vs. Kidd) that can make up for an inability to guard taller players, less scoring ability, and... that's it.
Stockton was more clutch, a much better passer, much more careful with the ball, a much better shooter, much more efficient, got more steals... but most importantly of all, he could make everyone else on the floor a star. Payton never did this. Payton got 8 assists the same way Marbury got 8 assists: by dominating the ball until he found someone in scoring position. Stockton got his ridiculous assist numbers by truly igniting the offense, not just by having the ball in his hands all the time, but by truly having eyes in the back of his head and a sixth sense for setting up teammates.