The 29-year-old slashed .298/.343/.466 with 21 home runs, 100 RBI, 101 runs scored, and 27 stolen bases in 708 plate appearances last year with the Dodgers.
Thomson helped lead the Phillies back to the playoffs for the first time since 2011 and his steady style was a big reason the team advanced all the way to the World Series.
Thomson will be the fifth manager since Charlie Manuel was let go back in 2013, going 65-46 since taking over the job when the team parted ways with Joe Girardi, who went 132-144.