Michigan State (19-14) earned the No. 9 seed in the Midwest region for the 2017 NCAA Men's Basketball Tournament and seven wins over teams that made the NCAA Tournament.
"I love Michigan State, but they lost 14 games and they didn't have as many good wins as we had," Boeheim said on the show.
Syracuse ended the season 18-14, saying the committee focused more on the losses this year than the wins, which he said was different than last year.
"Southern Cal, they always talk about did you challenge yourself in the non-conference, they obviously didn't and their two wins were at home," he said. "There's a little inconsistency there, but at the end of the day, it is what it is and there isn't as much consistency as maybe you would like."
The Orange had wins over No. 10 Duke, No. 9 Virginia and No. 6 Florida State, but lost five of their last seven games, including a loss to Miami (Fla.) in the second round of the ACC Tournament.
Despite not making it to March Madness, they did earn a No. 1 seed in the NIT and will take on UNC-Greensboro.
No. 9 Michigan State will take on No. 8 Miami (Fla.) on Thursday night in Tulsa.