In 2002, his Giants gained the wild-card berth and from there advanced to the World Series, where they lost in seven games to the Anaheim Angels, who were managed by his former Dodger teammate, Mike Scioscia. Baker is infamously known for removing Russ Ortiz during Game 6 of the 2002 World Series despite Ortiz allowing only four hits. Many Giants fans credit Baker for causing the loss as the Angels came back and won that game 6–5. Despite Baker's success in San Francisco, he had an increasingly strained relationship with owner Peter Magowan, one that even the Giants' first pennant in 13 years could not mend. The Giants did not renew his contract after the season, letting him leave to manage the Chicago Cubs and hiring Felipe Alou to replace him. Baker finished his tenure with a record of 840 wins and 715 losses in the regular season and 11 wins and 13 losses in the post-season.