After redshirting his first year in college, Abbate immediately became a starter in 2004. During that redshirt freshman season, Abbate had 101 tackles, including 13 tackles for a loss. In 2005, Abbate only had 76 tackles because of injury problems. During the 2006 season, Abbate led the team in tackles with 120. He had a late interception in the endzone against rival University of North Carolina. In the ACC Championship in Jacksonville, Florida, Abbate had 15 tackles against the Georgia Tech Yellow Jackets. The Deacons won that game 9-6. Abbate was voted as the MVP of the game for ABC. Abbate then played in the Orange Bowl against the University of Louisville. He had 15 tackles in that game, the first Bowl Championship Seriesbowl game participation for Wake Forest. Abbate was named an All-American and first team All-ACC in recognition of his performance throughout his final season during which he averaged 8.6 tackles per game.
The 2006 season
On February 13, 2006, Abbate's 15-year-old brother, Luke, was seriously injured in a car accident on the way home from lacrosse practice, and died two days later. Before his junior season, Abbate asked head coachJim Grobe whether he could switch his jersey number from 40 to 5, the number his brother had worn. Grobe agreed, and Abbate wore the number throughout his junior season. During the 2006 season, Abbate and his family would hold up five fingers before the start of the fourth quarter as a tribute to Luke. As the season progressed, Abbate's teammates, Wake Forest fans, and even fans of opposing teams began holding up five fingers as well—a tradition that attracted much media attention during the Deacons' successful year. Additionally, the Abbate family created the "Five Foundation" to raise awareness among young people of the responsibilities and dangers of driving. A movie about Jon Abbate, his brother Luke, and Wake Forest's 2006 football season, entitled The 5th Quarter, was released on March 25, 2011.
Professional career
Houston Texans
At the conclusion of the 2006 season, Abbate decided to enter the 2007 NFL Draft. "Unless someone could promise me if I went back that I'd grow three inches, the decision was pretty easy," Abbate said. "I could have gone back and been productive again, had another 100-plus tackles. But I'd be in the same situation with my height as a knock." Abbate was not drafted due to tearing his hamstring at the NFL combine but following the draft he signed a three-year contract with the Houston Texans as a free agent. The Texans converted him from linebacker to fullback. Abbate was placed on season-ending injured reserve on September 1, 2007, with an ankle injury. He was waived after a failed physical on August 29, 2008. However, he was re-signed shortly after on March 1. He was waived again on July 22, 2009. Abbate was re-signed by the Texans again on August 24, 2008 after wide receiverHarry Williams was placed on injured reserve.
Washington Redskins
Abbate was picked up by the Redskins in the 2010 offseason but was then released due to failing his physical.
New Orleans Saints
Abbate spent the remainder of the 2010 off season with the Saints after failing his physical with the Redskins.