Hayden, who signed a five-year, $43 million deal in 2009, last played Nov. 28 against San Diego. Though he missed five games, he still ranked fourth on the team with 61 tackles. He had two interceptions.
Colts starting right tackle Ryan Diem also is inactive with a back injury.
Former first-round draft pick Vernon Gholston was among the Jets' inactive players. Right tackle Damien Woody, who missed the last three games with an injured right knee, was back and starting for New York.
The game's start time was pushed back from 8 p.m. to 8:15 p.m.
Information from The Associated Press was used in this report.