Bay batted fifth spot in the batting order for the Subway Series opener at Yankee Stadium, going 0-for-3 in the Mets' 4-0 win.
Bay said before Friday's game that he's 100 percent healthy and feels "no pain" in his left thigh.
He said that he could have played Thursday in Cleveland, and that his absence from the lineup was more precautionary than anything else.
"It was just a deep thigh bruise," Bay said. "It feels a lot better today than it did yesterday."
Bay sustained the injury after falling down while beating out an infield single in the second inning of Wednesday's game in Cleveland.
Bay told manager Jerry Manuel that he could play the next day, but the manager kept him out of the lineup. Manuel said Thursday that it was his policy to keep a player out of the next day's lineup if he'd been removed from the previous day's game because of injury.
Bay is hitting .280 with four home runs and 27 RBIs. He's a lifetime .348 hitter (40-for-115) against the Yankees with six home runs and 25 RBIs.