The slugger hit 337 home runs with the Indians and 134 with the White Sox.
"It's special," Thome said. "You look at Philadelphia, Chicago, Cleveland and all are great baseball cities. To do that with the Phillies is special. It's something to be proud of."
Thome's second-inning blast was the 608th of his career, and he is now one shy of tying Sammy Sosa for seventh on the all-time list.
It was the fourth home run of the year for Thome and also moved him into a tie with Juan Samuel for the 23rd most homers in Phillies history.
Chris Toman is an associate reporter for MLB.com. This story was not subject to the approval of Major League Baseball or its clubs.