If they didn't find anything, and there was nothing to hide, nothing would have happened.
Also, three years after the program was "set back for many years," they were in the Final Four. And they had a Top 5 recruiting class in the country the following year (Winfred Walton included).
From there, they went to the Sweet 16 five and seven years after the program "was set back for many years," including a near upset of top seed Michigan State that was essentially a home game for the Spartans.
Might add that 10 short years after the infractions, they won a national title.
They did what they should have done, Boeheim and the program lost a single year of NCAA eligibility and that was that. They lost one scholarship for two years and weren't allowed to recruit for 6 months -- half of which came during the '92-93 season.
Do I think the NCAA came down hard against SU the second time around because JB was a repeat offender? Yes, I do. Do I think that is the Post Standard's fault? No. It is JB's fault - he is the head coach, and he is the one that the bulk of the blame should go to.