"Nothing serious," Manuel said. "We figured it would be best just to get him out of there and get it taken care of."
Darren O'Day replaced Putz and Francisco Rodriguez pitched a scoreless ninth.
Putz was a key offseason acquisition for the Mets, who overhauled their bullpen in one day when they obtained Putz from Seattle in a three-team, 12-player trade hours after signing closer Rodriguez.
John Maine posted his second consecutive solid outing, allowing two runs and six hits in 5 2-3 innings for New York.
"It's a process of working on things," he said. "I'm trying to fix things and get back on path. I feel comfortable right now and I'm good to go."
Anibal Sanchez went six innings for the Marlins, yielding three runs, one earned, and six hits.
"I felt OK," Sanchez said. "I didn't like the score but I got a lot of groundball outs.
"Right now I'm in the rotation. That's how I look at it."
Sanchez is competing with Andrew Miller for the No. 4 spot in the rotation. The winner will start the April 10 game against the Mets.
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