Dua tim dari Grup A adalah PSIS Semarang dan Barito Putera.
Dari Grup B, Persija Jakarta berhasil melaju dengan status juara grup, ditemani PSM Makassar yang menempati peringkat kedua.
Sementara itu, Persib Bandung dan Bali United juga sukses menjadi perwakilan Grup D.
Berikut klasemen akhir fase grup Piala Menpora 2021.
Grup A
| Pos | Tim | Main | M | S | K | MG | KG | SG | Poin | Ket |
|---|---|---|---|---|---|---|---|---|---|---|
| 1 | PSIS | 3 | 1 | 2 | 0 | 9 | 6 | +3 | 7 | Lolos |
| 2 | Barito Putera | 3 | 1 | 1 | 1 | 7 | 6 | 1 | 5 | Lolos |
| 3 | Persikabo 1973 | 3 | 0 | 2 | 1 | 4 | 6 | -2 | 2 | Gugur |
| 4 | Arema FC | 3 | 0 | 2 | 1 | 4 | 6 | -2 | 1 | Gugur |
Grup B
| Pos | Tim | M | S | K | MG | KG | SG | Poin | Ket | |
|---|---|---|---|---|---|---|---|---|---|---|
| 1 | Persija | 3 | 2 | 0 | 1 | 6 | 3 | +3 | 6 | Lolos |
| 2 | PSM | 3 | 1 | 2 | 0 | 5 | 3 | +2 | 5 | Lolos |
| 3 | Bhayangkara Solo FC | 3 | 1 | 1 | 1 | 3 | 3 | +0 | 3 | Gugur |
| 4 | Borneo FC | 3 | 0 | 1 | 2 | 2 | 7 | −5 | 0 | Gugur |
Grup C
| Pos | Tim | Main | M | S | K | MG | KG | SG | Poin | Ket |
| 1 | PSS | 4 | 2 | 1 | 1 | 3 | 2 | 1 | 7 | lolos |
| 2 | Persebaya | 4 | 2 | 1 | 1 | 4 | 3 | 1 | 7 | lolos |
| 3 | Persik | 4 | 1 | 2 | 1 | 5 | 6 | -1 | 4 | gugur |
| 4 | Madura United | 4 | 1 | 1 | 2 | 5 | 6 | -1 | 4 | gugur |
| 5 | Persela | 4 | 0 | 4 | 0 | 3 | 3 | 0 | 4 | gugur |
Grup D
| Pos | Tim | Main | M | S | K | MG | KG | SG | Poin | Ket |
|---|---|---|---|---|---|---|---|---|---|---|
| 1 | Persib | 3 | 2 | 1 | 0 | 6 | 3 | +3 | 7 | Lolos |
| 2 | Bali United | 3 | 1 | 2 | 0 | 4 | 2 | +2 | 5 | Lolos |
| 3 | Persiraja | 3 | 1 | 0 | 2 | 5 | 4 | +1 | 3 | Gugur |
| 4 | Persita | 3 | 0 | 1 | 2 | 2 | 3 | −1 | 0 | Gugur |