Magadan entered the 1991 season as the starting first baseman for the Mets, but his numbers went down significantly. He only managed to bat .258 for the season, with 108 hits, and missed most of the last two months of the season with shoulder injuries. The Mets once again went outside the organization to bring in a first baseman in the off season and brought in Eddie Murray, another former Dodger and eventual Hall of Famer, to fill the role. This time, Magadan stayed in the lineup as he was moved to third base permanently while Howard Johnson was moved to the outfield. He was limited again by injuries to 99 games but managed a .283 average.