The 2003-04 Azerbaijan Top League was contested by fourteen clubs and won by PFC Neftchi Baku.
| Pos | Team | P | W | D | L | F | A | Pts |
|---|---|---|---|---|---|---|---|---|
| 1 | PFC Neftchi Baku | 26 | 22 | 3 | 1 | 66 | 15 | 69 |
| 2 | FK Shamkir | 26 | 20 | 4 | 2 | 67 | 11 | 64 |
| 3 | FK Karabakh | 26 | 19 | 3 | 4 | 63 | 17 | 60 |
| 4 | Khazar Universiteti Baku | 26 | 15 | 6 | 5 | 43 | 16 | 51 |
| 5 | Dinamo Baku | 26 | 12 | 5 | 9 | 45 | 32 | 41 |
| 6 | Shafa Baku | 26 | 12 | 3 | 11 | 40 | 23 | 39 |
| 7 | Bakili Baku | 26 | 10 | 4 | 12 | 40 | 46 | 34 |
| 8 | MOIK Baku | 26 | 7 | 8 | 11 | 25 | 32 | 29 |
| 9 | Adliyya Baku | 26 | 7 | 8 | 11 | 27 | 40 | 29 |
| 10 | FC Sahdag Qusar | 26 | 7 | 6 | 13 | 29 | 41 | 27 |
| 11 | FK Gäncä | 26 | 6 | 5 | 15 | 22 | 45 | 23 |
| 12 | Khazar Sumqayit | 26 | 7 | 1 | 18 | 32 | 78 | 22 |
| 13 | PFC Turan Tovuz | 26 | 4 | 4 | 18 | 15 | 59 | 16 |
| 14 | Lokomotiv Imisli | 26 | 4 | 0 | 22 | 17 | 76 | 12 |
| Pos | Name | Club | Goals |
|---|---|---|---|
| 1 | Samir Musayev (AZE) | FK Karabakh | 20 |
| 2 | Vadim Vasilyev (AZE) | PFC Neftchi Baku | 16 |
| 3 | Kanan Karimov (AZE) | FK Shamkir | 15 |
| 4 | Sanan Qurbanov (AZE) | Shafa Baku | 12 |
| Zaur Ramazanov (AZE) | MOIK Baku | 12 |
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