| Competition: | Slovenian Third League |
| Season: | 1999–2000 |
| Matches: | 681 |
| Total Goals: | 2162 |
| Prevseason: | 1998–99 |
| Nextseason: | 2000–01 |
The 1999–2000 Slovenian Third League was the eight season of the Slovenian Third League, the third-highest level in the Slovenian football system.