The 2016 ISC Liga Nusantara or 2016 Indonesia Soccer Championship C season is the second edition of Liga Nusantara after the Second Division and Third Division merged on 2014 season.
Perseden Denpasar became champion after beating PSN Ngada 2–0 in the final.
[2] Each Provincial Association only given one representative to the national round.
National round took place in several provinces that have been determined by PT GTS with the following format: Each Provincial Association only given one representative to the national round.
National round will take place in Central Java and Special Region of Yogyakarta.
All group will play half season round-robin.