Selected in the second round of the 1960 NFL Draft by the Philadelphia Eagles, Baughan quickly established himself as one of the league's premier defenders. Known for his relentless pursuit of the quarterback and his uncanny ability to make plays in the backfield, Baughan was a force to be reckoned with. His dominance on the field helped lead the Eagles to a Super Bowl championship in his rookie season, and he continued to excel throughout his career.  

When he went into the NFL, he switched sides of the ball and played linebacker for the Philadelphia Eagles, LA Rams, and Washington Redskins. His pro career combined for 11 seasons, where he made the Pro Bowl 9 times and was voted as an All-Pro 2 times. He was on the Eagles 1960 NFL Championship team.