| Competition: | Slovenian PrvaLiga |
| Season: | 1999–2000 |
| Winners: | Maribor (4th title) |
| Continentalcup1: | Champions League |
| Continentalcup1 Qualifiers: | Maribor |
| Continentalcup2: | UEFA Cup |
| Continentalcup3: | Intertoto Cup |
| Continentalcup3 Qualifiers: | Primorje |
| League Topscorer: | Kliton Bozgo (24 goals) |
| Biggest Home Win: | Celje 7–0 Beltinci |
| Biggest Away Win: | Beltinci 0–6 Maribor |
| Highest Scoring: | Pohorje 3–5 Korotan |
| Matches: | 198 |
| Total Goals: | 613 |
| Longest Wins: | 11 games Maribor |
| Longest Unbeaten: | 16 games Maribor |
| Longest Winless: | 20 games Beltinci |
| Longest Losses: | 8 games Beltinci |
| Highest Attendance: | 6,000 Maribor 2–1 Rudar |
| Lowest Attendance: | 150 Olimpija 3–1 Pohorje |
| Attendance: | 190,200 |
| Average Attendance: | 960 |
| Prevseason: | 1998–99 |
| Nextseason: | 2000–01 |
The 1999–2000 Slovenian PrvaLiga season started on 1 August 1999 and ended on 20 May 2000. Each team played a total of 33 matches.
| Rank | Player | Club | Goals |
|---|---|---|---|
| 1 |  Kliton Bozgo | Maribor | 24 |
| 2 |  Oskar Drobne | Domžale/Gorica | 23 |
| 3 | Uroš Barut | Primorje | 17 |
| 4 | Marko Kmetec | Olimpija | 16 |
| 5 | Aljoša Sivko | Dravograd | 14 |
| 6 | Anton Žlogar | Gorica | 13 |
| 7 | Andrej Goršek | Celje | 12 |
| 8 | Dejan Djuranović | Maribor | 11 |
| Vanja Starčević | Primorje | ||
| Aleksander Radosavljević | Celje |