| Club: | São Paulo |
| Season: | 2006 |
| Manager: |  Muricy Ramalho |
| Mgrtitle: | Manager |
| Chairman: | Juvenal Juvêncio |
| Chrtitle: | Chairman |
| League: | Campeonato Brasileiro |
| League Result: | Champions (4th title)[1] |
| Cup1: | Copa Libertadores |
| Cup1 Result: | Runners-up |
| Cup2: | Recopa Sudamericana |
| Cup2 Result: | Runners-up |
| Cup3: | Campeonato Paulista |
| Cup3 Result: | Runners-up |
| League Topscorer: | Lenílson Rogério Ceni (8 each) |
| Season Topscorer: | Rogério Ceni (16 goals) |
| Highest Attendance: | 71,456 (v Internacional in the Copa Libertadores) |
| Lowest Attendance: | 4,420 (v Guarani in the Campeonato Paulista) |
| Prevseason: | 2005 |
| Nextseason: | 2007 |
The 2006 season was São Paulo's 77th season in the club's existence. São Paulo finished in the second position in the Campeonato Paulista, only one point behind the winners Santos. A year after winning the Copa Libertadores, São Paulo once again challenged for the cup, being defeated by Internacional in a second final between Brazilian teams in a row, having beaten Atlético Paranaense in the previous edition. São Paulo lost by 2–1 in the Morumbi and drew in 2–2 on away second leg, thus coming in second place. As the current champions of Copa Libertadores, São Paulo played the Recopa Sudamericana versus Boca Juniors and was defeated by 4–3 on aggregate. Tricolor won the Campeonato Brasileiro fifteen years after their last title, in 1991 and became national champions for the fourth time, securing the title in 36th matchweek against Atlético Paranaense in the Morumbi with a 1–1 draw.
| width=60 | Position | width=60 | Nation | width=60 | Playing position | width=150 | Name | width=80 | Campeonato Paulista | width=80 | Copa Libertadores | width=80 | Campeonato Brasileiro | width=80 | Recopa Sudamericana | width=80 | Total |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | | GK | Rogério Ceni | 5 | 3 | 8 | 0 | 16 | |||||||||
| 2 | | MF | Danilo | 8 | 3 | 4 | 0 | 15 | |||||||||
| = | | FW | Thiago Ribeiro | 10 | 1 | 3 | 1 | 15 | |||||||||
| 3 | | FW | Alex Dias | 6 | 1 | 4 | 0 | 11 | |||||||||
| 4 | | FW | Aloísio | 0 | 5 | 5 | 0 | 10 | |||||||||
| 5 | | MF | Lenílson | 0 | 1 | 8 | 0 | 9 | |||||||||
| 6 | | DF | Fabão | 2 | 2 | 4 | 0 | 8 | |||||||||
| = | | FW | Leandro | 1 | 1 | 6 | 0 | 8 | |||||||||
| = | | MF | Mineiro | 3 | 2 | 3 | 0 | 8 | |||||||||
| = | | MF | Souza | 3 | 1 | 4 | 0 | 8 | |||||||||
| 7 | | FW | Ricardo Oliveira | 0 | 1 | 5 | 0 | 6 | |||||||||
| 8 | | DF | Alex Silva | 0 | 0 | 4 | 0 | 4 | |||||||||
| 9 | | DF | André Dias | 2 | 0 | 1 | 0 | 3 | |||||||||
| = | | DF | Júnior | 0 | 0 | 2 | 1 | 3 | |||||||||
| 10 | | DF | Edcarlos | 0 | 2 | 0 | 0 | 2 | |||||||||
| = | | DF | Ilsinho | 0 | 0 | 2 | 0 | 2 | |||||||||
| = | | MF | Richarlyson | 1 | 0 | 1 | 0 | 2 | |||||||||
| = | | FW | Roger | 2 | 0 | 0 | 0 | 2 | |||||||||
| 11 | | FW | Grafite | 1 | 0 | 0 | 0 | 1 | |||||||||
| = | | MF | Josué | 1 | 0 | 0 | 0 | 1 | |||||||||
| / | / | / | Own goals | 0 | 0 | 2 | 1 | 3 | |||||||||
| Total | 45 | 23 | 66 | 3 | 138 |
| Games played | 73 (19 Campeonato Paulista, 14 Copa Libertadores, 38 Campeonato Brasileiro, 2 Recopa Sudamericana) |
| Games won | 43 (13 Campeonato Paulista, 8 Copa Libertadores, 22 Campeonato Brasileiro, 0 Recopa Sudamericana) |
| Games drawn | 18 (3 Campeonato Paulista, 2 Copa Libertadores, 12 Campeonato Brasileiro, 1 Recopa Sudamericana) |
| Games lost | 12 (3 Campeonato Paulista, 4 Copa Libertadores, 4 Campeonato Brasileiro, 1 Recopa Sudamericana) |
| Goals scored | 138 |
| Goals conceded | 70 |
| Goal difference | +57 |
| Best result | 5–0 (A) v Portuguesa Santista – Campeonato Paulista – 2006.2.12 5–0 (H) v Juventude – Campeonato Brasileiro – 2006.10.14 |
| Worst result | 0–4 (H) v Santos – Campeonato Brasileiro – 2006.7.30 |
| Top scorer | Rogério Ceni (16 goals) |