| Season: | 2000–01 |
| Stdtitle: | Ground |
| League Topscorer: | Krzysztof Warzycha (13) |
| Season Topscorer: | Krzysztof Warzycha (19) |
| Pattern La1: | _nig06h |
| Pattern B1: | _shoulder_stripes_white_stripes |
| Pattern Ra1: | _nig06h |
| Pattern Sh1: | _adidaswhite |
| Pattern So1: | _3_stripes_white |
| Leftarm1: | 008000 |
| Body1: | 008000 |
| Rightarm1: | 008000 |
| Shorts1: | 008000 |
| Socks1: | 008000 |
| Pattern La2: | _nig06a |
| Pattern B2: | _shoulder_stripes_white_shirt |
| Pattern Ra2: | _nig06a |
| Pattern Sh2: | _adidasonwhite |
| Pattern So2: | _color_3_stripes_on_white |
| Leftarm2: | 008000 |
| Body2: | 008000 |
| Rightarm2: | 008000 |
| Shorts2: | 008000 |
| Socks2: | 008000 |
| Pattern La3: | _shoulder_stripes_white_stripes |
| Pattern B3: | _shoulder_stripes_white_stripes |
| Pattern Ra3: | _shoulder_stripes_white_stripes |
| Pattern Sh3: | _adidaswhite |
| Pattern So3: | _3_stripes_white |
| Leftarm3: | 1C47B9 |
| Body3: | 1C47B9 |
| Rightarm3: | 1C47B9 |
| Shorts3: | 1C47B9 |
| Socks3: | 1C47B9 |
| Nextseason: | 2001–02 |
In the 2000–01 season Panathinaikos played for 42nd consecutive time in Greece's top division, Alpha Ethniki. They also competed in the UEFA Champions League and the Greek Cup.
See main article: 2000–01 Alpha Ethniki.
See main article: 2000–01 Greek Football Cup.
See main article: 2000–01 UEFA Champions League.
See main article: 2000–01 UEFA Champions League qualifying rounds.
Group E
See main article: 2000–01 UEFA Champions League first group stage.
Group A
See main article: 2000–01 UEFA Champions League second group stage.