Statistics of Kyrgyzstan League in season 1999.
It was performed in 12 teams, and Dinamo Bishkek won the championship.
| Pos | Club | P | W | D | L | GF | GA | Pts |
| 1 | Dinamo Bishkek | 22 | 17 | 3 | 2 | 60 | 12 | 54 |
| 2 | SKA PVO Bishkek | 22 | 14 | 6 | 2 | 60 | 14 | 48 |
| 3 | Zhashtyk Ak Altyn Kara-Suu | 22 | 15 | 2 | 5 | 48 | 18 | 47 |
| 4 | Polyot Bishkek | 22 | 14 | 5 | 3 | 50 | 18 | 47 |
| 5 | Dordoy Naryn | 22 | 11 | 0 | 11 | 37 | 40 | 33 |
| 6 | SKNG Guardia Bishkek | 22 | 9 | 4 | 9 | 34 | 28 | 31 |
| 7 | KVT Dinamo Kara Balta | 22 | 9 | 3 | 10 | 31 | 42 | 30 |
| 8 | Dinamo Alay Osh | 22 | 8 | 6 | 8 | 40 | 48 | 30 |
| 9 | Semetey Kyzyl Kiya | 22 | 9 | 2 | 11 | 34 | 29 | 29 |
| 10 | Energetik Kara Kul | 22 | 3 | 1 | 18 | 12 | 61 | 10 |
| 11 | Dinamo Ala Buka | 22 | 2 | 3 | 17 | 15 | 58 | 9 |
| 12 | Dinamo Jalal Abad | 22 | 2 | 3 | 17 | 9 | 62 | 9 |
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