Kaeding booted three field goals in the first half, helping post the Chargers to a 16-14 lead, and Erik Weddle returned a pick-off 41 yards for a score in the third quarter to put San Diego up 26-14.
Kevin Burnett also scored on a interception return for the Chargers (6-5), who intercepted Colts quarterback Peyton Manning four times in all and scored a total of 20 points off turnovers.
Philip Rivers finished with 185 yards passing and Mike Tolbert carried the ball 26 times for 103 yards and a touchdown for San Diego.
Manning was held in check despite completing 31-of-48 for 285 yards and two touchdowns for the Colts (6-5), who lost for the second week in a row.
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