Pat Clements (1-0), the third Padres pitcher, gave up two hits and one run in two innings.
As of 2010, no Padres pitcher has ever thrown a no-hitter.
The 22-year-old right hander also walked and became the first Padres pitcher in over five years to steal a base.
Twice Padres pitchers walked Duncan in the late innings.
The Mets could have used a couple of offensive shock waves in the fifth inning, when they blew an exceptional opportunity against the tiring Padres pitcher Andy Ashby.
Tim Scott, the third Padres pitcher, got the last three outs of the game.
"Jerry assured us that he has no intention of becoming the president," said Dennis Rasmussen, a Padres pitcher and Kapstein client.
The Padres pitchers are not the only beneficiaries of Stewart's detour.
As the Padres pitcher stood, he turned to the plate umpire, Brian Gorman, and said, "That's twice they've come inside, and that's garbage."
Rich Gossage (2-2), the fourth Padres pitcher, worked one inning to earn credit for the victory.