Perez (2-0) allowed four hits, struck out seven and overcame five walks. Aaron Heilman escaped a bases-loaded jam in the eighth and Billy Wagner finished for his fourth save.
A brawl in the stands down the right-field line briefly held up the game with two outs in the ninth. One fan wearing a Mets jersey was led away in handcuffs.
Chase Utley hit a solo homer for the Phillies. Jamie Moyer (1-1) gave up two runs and seven hits in six innings.
Rollins hasn't started the last 10 games since spraining his left ankle in a win over the Mets on April 8.
With a sellout crowd chanting "MVP," Rollins emerged from the dugout to pinch-hit in the sixth. But he grounded out against Duaner Sanchez to leave two runners on.
Reyes then homered in the seventh to make it 4-0. Struggling Phillies first baseman Ryan Howard botched Endy Chavez's hard grounder that could've been an inning-ending double play, allowing Reyes to come up against Ryan Madson.
Howard, the 2006 NL MVP, was 0-for-5 with three strikeouts. He's batting .182 with 26 strikeouts in 66 at-bats. Howard heard plenty of boos after he fanned for the third time.
Utley connected off Scott Schoeneweis, slicing it to 4-1 in the seventh. The Phillies missed an opportunity to get closer in the eighth after getting one run.
Pat Burrell drew a leadoff walk from Joe Smith. After Pedro Feliz grounded out, pinch-hitter Greg Dobbs singled off Pedro Feliciano and Eric Bruntlett walked to load the bases.
Heilman came in and allowed an RBI single by pinch-hitter Carlos Ruiz that cut it to 4-2. But Heilman struck out pinch-hitter Geoff Jenkins and Jayson Werth to escape the jam.
Philadelphia beat the Mets eight straight games last year, needing every one of those wins. After chasing New York the entire season, the Phillies caught the Mets the final weekend and clinched their first NL East title on the last day of the season.
The Phillies' success carried over and they spoiled the final Shea Stadium opener, rallying for a 5-2 win on April 8. It was a costly win, though, because Rollins went down in that game. The Phillies are 4-6 without their switch-hitting shortstop.
The Mets jumped on Moyer right away. Reyes led off with a double down the left-field line. Ryan Church followed with a liner to right field that was dropped by So Taguchi and ruled a single. Wright's double to center drove in two runs for a 2-0 lead.
Notes: Wright has 12 RBIs in the last seven games. ... The Mets have scored in the first inning in seven straight games. ... Rollins isn't sure when he'll return to the lineup, though manager Charlie Manuel hasn't ruled out Sunday night. ... Howard is 1-for-16 with nine strikeouts against Perez.
