Draw
The draw for the second stage was held on 14 June 2017, 20:00 PYT (UTC−4), at the CONMEBOL Convention Center in Luque, Paraguay. [3] For the second stage, the teams were allocated to two pots according to their previous results in this season:
- Pot 1: 10 teams transferred from the Copa Libertadores and six best winners of the first stage from the Copa Sudamericana
- Pot 2: 16 remaining winners of the first stage from the Copa Sudamericana
The 32 teams were drawn into 16 ties (O1–O16) between a team from Pot 1 and a team from Pot 2, with the teams from Pot 1 hosting the second leg. Teams from the same association could be drawn into the same tie. [4]
The following were the 10 teams transferred from the Copa Libertadores (two best teams eliminated in the third stage of qualifying and eight third-placed teams in the group stage).
| Match | Best teams eliminated in third stage | Second stage draw |
|---|---|---|
| G2 |  Olimpia | Pot 1 |
| G4 |  Junior | |
| Group | Third-placed teams in group stage | Second stage draw |
| 1 |  Estudiantes | Pot 1 |
| 2 | Santa Fe | |
| 3 | Independiente Medellín | |
| 4 |  Flamengo | |
| 5 | Atlético Tucumán | |
| 6 | Libertad | |
| 7 | Chapecoense | |
| 8 |  Deportes Iquique |
The following were the 22 winners of the first stage from the Copa Sudamericana. Matches in the first stage were considered for the ranking of teams for the second stage draw.
| Pos | Match | First stage winners | Pld | W | D | L | GF | GA | GD | Pts | Second stage draw |
|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | G6 | Sol de América | 2 | 2 | 0 | 0 | 10 | 3 | +7 | 6 | Pot 1 |
| 2 | G14 | Arsenal | 2 | 2 | 0 | 0 | 8 | 1 | +7 | 6 | |
| 3 | G3 |  Universidad Católica | 2 | 2 | 0 | 0 | 6 | 1 | +5 | 6 | |
| 4 | G10 | Corinthians | 2 | 2 | 0 | 0 | 4 | 1 | +3 | 6 | |
| 5 | G13 |  Boston River | 2 | 1 | 1 | 0 | 4 | 2 | +2 | 4 | |
| 6 | G4 | LDU Quito | 2 | 1 | 1 | 0 | 4 | 3 | +1 | 4 | |
| 7 | G7 | Cerro Porteño | 2 | 1 | 1 | 0 | 3 | 2 | +1 | 4 | Pot 2 |
| 8 | G19 | Racing | 2 | 1 | 1 | 0 | 2 | 1 | +1 | 4 | |
| 9 | G11 | Independiente | 2 | 1 | 1 | 0 | 1 | 0 | +1 | 4 | |
| 10 | G1 |  Nacional Potosí | 2 | 1 | 0 | 1 | 4 | 3 | +1 | 3 | |
| 11 | G8 | Huracán | 2 | 1 | 0 | 1 | 4 | 3 | +1 | 3 | |
| 12 | G22 | Fluminense | 2 | 1 | 0 | 1 | 2 | 1 | +1 | 3 | |
| 13 | G15 | Fuerza Amarilla | 2 | 1 | 0 | 1 | 2 | 1 | +1 | 3 | |
| 14 | G20 | Nacional | 2 | 1 | 0 | 1 | 3 | 3 | 0 | 3 | |
| 15 | G18 | Sport Recife | 2 | 1 | 0 | 1 | 3 | 3 | 0 | 3 | |
| 16 | G16 | Bolívar | 2 | 1 | 0 | 1 | 2 | 2 | 0 | 3 | |
| 17 | G2 | Deportivo Cali | 2 | 1 | 0 | 1 | 2 | 2 | 0 | 3 | |
| 18 | G17 | Palestino | 2 | 1 | 0 | 1 | 1 | 1 | 0 | 3 | |
| 19 | G5 | Patriotas | 2 | 1 | 0 | 1 | 1 | 1 | 0 | 3 | |
| 20 | G9 | Oriente Petrolero | 2 | 0 | 2 | 0 | 2 | 2 | 0 | 2 | |
| 21 | G12 | Ponte Preta | 2 | 0 | 2 | 0 | 1 | 1 | 0 | 2 | |
| 22 | G21 | Defensa y Justicia | 2 | 0 | 2 | 0 | 1 | 1 | 0 | 2 |
Rules for classification: 1) Points; 2) Goal difference; 3) Goals scored; 4) Away goals scored; 5) CONMEBOL ranking.
