While at LSU, Jones only started two games prior to the end of his junior year, but he started every game after that, leading LSU to a 12-2-1 record.
During his senior year (1972), LSU went 9-2-1. Except for one week, LSU spent that entire season ranked in the AP Top 10. That year, Jones became the first quarterback in LSU history to be awarded consensus All-American honors. Jones also finished 4th in the vote for the Heisman Trophy and was voted the National Collegiate Player of the Year by the Cleveland Touchdown Club.
One of Bert Jones' most famous moments came in the 1972 LSU-Ole Miss game, when he led LSU to a 17-16 last-second victory by hitting RB Brad Davis in the end zone for a touchdown as time expired. Jones's other major victories included No. 14 LSU's 28-8 victory over No. 7 Notre Dame in 1971 and No. 8 LSU's 35-7 victory over No. 9 Auburn in 1972.
During his 17 games at LSU, Bert Jones completed 52.6 percent of his passes for 3,225 yards and 28 touchdowns, which at the time was the most career passing yards and touchdowns of any quarterback in LSU history.
In 1973, Jones was chosen in the first round (2nd overall) of the NFL draft by the Baltimore Colts. During his eight year tenure as the Colts' starting QB, Jones and his teammates enjoyed three consecutive AFC East division titles (1975–77). The 1976 regular season was Bert Jones's finest as a professional as he threw for 3,104 yards and a career high 24 touchdowns compiling a passer rating of 102.5.
Jones was one of only three quarterbacks to achieve a 100+ passer rating during the entire decade of the 1970s, joining Dallas' Roger Staubach (1971) and Oakland's Ken Stabler (1976). Jones was thus honored by the Associated Press as 1976's NFL Most Valuable Player and NFL Offensive Player of the Year, selected All-Pro and named to the Pro Bowl team.
Bert Jones possessed skills that very few QBs can claim. He called all his own plays and was a true field general unlike most QBs of today. He also possessed one of the strongest arms ever to play in the NFL. Many observers believe that only John Elway and Brett Favre have had similar arm strength.
It was reported that he was able to throw the ball over 80 yards in the air in his prime. On the eve of Super Bowl XLII New England Patriots head coach Bill Belichick, in discussing his choices for the greatest quarterbacks of all time, described Jones as the best "pure passer" he ever saw.