Judge had his third straight injury-interrupted season since winning the 2017 American League Rookie of the Year award, hitting .257 with nine homers and 22 RBIs in 101 at-bats and 28 games. After homering in his first five games, he strained his right calf and played just once between Aug. 11 and Sept. 16.
He earned $3,148,148 in prorated pay last year from an $8.5 million salary. Judge is eligible for free agency after the 2022 season.
New York also reached deals with catcher Gary Sanchez ($6.35 million), first baseman Luke Voit ($4.7 million), third baseman Gio Urshela ($4.65 million), shortstop Gleyber Torres ($4 million), right-hander reliever Chad Green ($2.15 million), left-hander Jordan Montgomery ($2.13 million) and outfielder Clint Frazier ($2.1 million).
No Yankees remain eligible for arbitration.
The Associated Press contributed to this report.