The Falcons (6-3, 4-1 Mid-American Conference) won their fifth straight. They've allowed just 33 points and three touchdowns in those five games and haven't given up a touchdown in their last two.
Eastern Michigan (1-7, 0-4), which had gained 1,201 yards in its past two games, was held to 178 by the Falcons, who limited Massachusetts to 118 yards in a 24-0 win last week.
Jones punctuated the effort with a 23-yard touchdown return after Martin sacked Eastern Michigan's Tyler Benz.
John Pettigrew carried 24 times for 136 yards for the Falcons, who became bowl-eligible.
Michigan coach Jim Harbaugh said Tuesday he has informed competing quarterbacks Jake Rudock and Shane Morris of his decision on a starter for the Wolverines' opener Thursday night at Utah.
Michigan State quarterback and Heisman Trophy hopeful Connor Cook said he was disappointed his teammates didn't vote him among the team's three captains this season.
No. 5 Michigan State will start redshirt freshman Vayante Copeland at one of its two cornerback spots Friday night at Western Michigan.
Less than four months removed from his transfer to Florida State, Everett Golson has been named the Seminoles' starting quarterback.
After hinting at it for more than a week, LSU coach Les Miles confirmed Monday that Brandon Harris will start at quarterback in Saturday's opener against McNeese State.
USC AD Pat Haden said he had "thoughtful conversations" with medical professionals and that "a lot of careful thought was given" before deciding on a course of action for coach Steve Sarkisian.