Alhambra-Union won the round two final 24-19.
The scores were locked 19-19 at the end of regulation.
Alhambra-Union clinched the win with a try in extra time.
Southern won round one and wins the trophy on countback.
It was tied on 23 points with Alhambra-Union but had a superior points differential.
Kaikorai (20 points) finished in third place and Harbour (18 points), Taieri (15 points), University (8 points), Dunedin (7 points), Zingari-Richmond (5 points) and Green Island (3 points) filled the minor placings.