The top 10 teams of the Cup moved to the knockout stage of the 2013 PFF National Men's Club Championship.

On December 17, 2012, Stallion defeated Global with a 2–1 scoreline to win their first ever UFL Cup.

The two best third place teams among all groups qualify for 2013 PFF National Men's Club Championship.

[1] They are determined by the parameters in this order: The Third-place playoff and Finals matches were originally scheduled on November 19 at the Rizal Memorial Stadium, but were postponed on a later date, since some players playing for the clubs are on national duty as members of the Philippine national team competing in the 2012 AFF Suzuki Cup.

The actual date depended on how the national team fared in the international tournament.