Berikut adalah daftar skuad dari tiap kontingen tim sepakbola PON 2016.
Grup A
Bali
Head coach: A.A. Bramasta
DKI Jakarta
Head coach: Sudirman
Jawa Barat
Head coach: Lukas Tumbuan
Jawa Tengah
Head coach: Anjar Jambore Widodo
Grup B
Kalimantan Selatan
Head coach: Mundari Karya
Sulawesi Selatan
Head coach: Syamsuddin Umar
Sumatera Selatan
Head coach: Rudy William Keltjes
Sumatera Utara
Head coach: Budi Sianturi
Grup C
Bangka Belitung
Head coach: Indra Tohir
Gorontalo
Head coach: Weli Podungge
Kalimantan Timur
Head coach: Mundari Karya
Papua
Head coach: Chris Yarangga