The Jaguars (4-3) made the surprising announcement 90 minutes before kickoff.
The Jaguars announced that Chris Ivory, who had 47 yards on 17 carries against the Colts, will start in Fournette's place.
Fournette is sixth in the National Football League in rushing with 596 yards and has scored seven touchdowns in six games.
United States job growth surges, nonfarm payrolls goes up
US labor reports for October were released Friday, and the numbers were slightly better than what was initially expected. On the wage front, average hourly pay rose 2.4% in October from a year ago, following a 2.2% advance in September.
Fournette is over the ankle injury, but he won't play against the Bengals on Sunday. Linder sat out the last three games with an undisclosed illness. The Jaguars converted 12 of 18 third downs.
As it was, the Jaguars gained 407 yards as Blake Bortles went 24-of-38 for 259 yards with a touchdown. They then took a 23-7 lead when Mickens returned a punt 63 yards for a touchdown with 14:35 remaining in the fourth quarter.