1998–99 Slovenian Second League
# 1998–99 Slovenian Second League

The 1998–99 Slovenian Second League season started on 15 August 1998 and ended on 13 June 1999. Each team played a total of 30 matches.

## League standing

| Pos | Team | Pld | W | D | L | GF | GA | GD | Pts | Promotion or relegation |
| - | - | - | - | - | - | - | - | - | - | - |
| 1 | Dravograd (C, P) | 30 | 18 | 7 | 5 | 69 | 31 | +38 | 61 | Promotion to Slovenian PrvaLiga |
| 2 | Pohorje (P) | 30 | 16 | 6 | 8 | 56 | 35 | +21 | 54 | Promotion to Slovenian PrvaLiga |
| 3 | Železničar Maribor | 30 | 15 | 9 | 6 | 58 | 30 | +28 | 54 | |
| 4 | Šmartno | 30 | 15 | 8 | 7 | 49 | 28 | +21 | 53 | |
| 5 | Tabor Sežana | 30 | 15 | 7 | 8 | 59 | 35 | +24 | 52 | |
| 6 | Aluminij | 30 | 14 | 9 | 7 | 57 | 42 | +15 | 51 | |
| 7 | Drava Ptuj | 30 | 13 | 9 | 8 | 48 | 36 | +12 | 48 | |
| 8 | Zagorje | 30 | 12 | 7 | 11 | 45 | 43 | +2 | 43 | |
| 9 | Šentjur | 30 | 11 | 7 | 12 | 38 | 44 | −6 | 40 | |
| 10 | Krka | 30 | 11 | 6 | 13 | 45 | 61 | −16 | 39 | |
| 11 | Nafta Lendava | 30 | 10 | 6 | 14 | 35 | 47 | −12 | 36 | |
| 12 | Jadran Hrpelje-Kozina | 30 | 10 | 5 | 15 | 36 | 42 | −6 | 35 | |
| 13 | Renče (R) | 30 | 9 | 7 | 14 | 37 | 53 | −16 | 34 | Relegation to Slovenian Third League |
| 14 | Factor (R) | 30 | 6 | 11 | 13 | 30 | 44 | −14 | 29 | Relegation to Slovenian Third League |
| 15 | Slovan Slavija (R) | 30 | 4 | 6 | 20 | 29 | 75 | −46 | 18 | Relegation to Slovenian Third League |
| 16 | Rudar Trbovlje (R) | 30 | 3 | 6 | 21 | 17 | 62 | −45 | 15 | Relegation to Slovenian Third League |
