The draw for the qualifying stages and group stage was held on 17 December 2019, 20:30 PYST, at the CONMEBOL Convention Centre in Luque, Paraguay. Teams were seeded by their CONMEBOL ranking of the Copa Libertadores as of 15 December 2019, taking into account the following three factors:
Performance in the last 10 years, taking into account Copa Libertadores results in the period 2010–2019
Historical coefficient, taking into account Copa Libertadores results in the period 1960–2009
Local tournament champion, with bonus points awarded to domestic league champions of the last 10 years
For the first stage, the six teams were drawn into three ties, with the teams from Pot 1 hosting the second leg.
Pot 1
Pot 2
;Notes For the second stage, the 16 teams were drawn into eight ties, with the teams from Pot 1 hosting the second leg. Teams from the same association could not be drawn into the same tie, excluding the three winners of the first stage, which were allocated to Pot 2 and whose identity was not known at the time of the draw, and could be drawn into the same tie with another team from the same association.
Pot 1
Pot 2
;Notes For the third stage, the eight winners of the second stage were allocated without any draw into the following four ties, with the team in each tie with the higher CONMEBOL ranking hosting the second leg. As their identity was not known at the time of the draw, they could be drawn into the same tie with another team from the same association.
In the qualifying stages, each tie is played on a home-and-away two-legged basis. If tied on aggregate, the away goals rule will be used. If still tied, extra time will not be played, and the penalty shoot-out will be used to determine the winner..
Bracket
The qualifying stages are structured as follows:
First stage : The three winners of the first stage advance to the second stage to join the 13 teams which are given byes to the second stage.
Second stage :The eight winners of the second stage advance to the third stage.
Third stage : The four winners of the third stage advance to the group stage to join the 28 direct entrants. The two best teams eliminated in the third stage enter the Copa Sudamericana second stage.
The bracket was decided based on the first stage draw and second stage draw, which was held on 17 December 2019.
G1
G2
G3
G4
First stage
The first legs were played on 21–22 January, and the second legs were played on 28–29 January 2020.
Match E1
---- Guaraní won 5–0 on aggregate and advanced to the second stage.
Match E2
---- Universitario won 2–1 on aggregate and advanced to the second stage.
Match E3
---- Barcelona won 5–1 on aggregate and advanced to the second stage.
Second stage
The first legs were played on 4–6 February, and the second legs were played on 11–13 February 2020.
Match C1
---- Cerro Porteño won 2–1 on aggregate and advanced to the third stage.
Match C2
---- Palestino won 6–2 on aggregate and advanced to the third stage.
The two best teams eliminated in the third stage entered the Copa Sudamericana second stage. Only matches in the third stage were considered for the ranking of teams.
