Due to injuries, Walton spent more time on the disabled list than on the court with his hometown team. In his first season with San Diego, Walton played 14 games for the Clippers in the 1979–80 season. Walton re-fractured the navicular bone in the fourth 1979 exhibition game and subsequently missed all of the 1980–81 and 1981–82 seasons, undergoing several surgeries on his injured foot. Walton ignored doctors who said he would never play again and underwent surgery to restructure his left foot in 1981. His high arch, which made the foot bones susceptible to breaking, was lowered to relieve the stress on the bones.