| Competition: | Israeli Premier League |
| Season: | 1999–2000 |
| Winners: | Hapoel Tel Aviv 11th title |
| Relegated: | Hapoel Kfar Saba Maccabi Herzliya Hapoel Jerusalem |
| League Topscorer: | Assi Tubi (27) |
| Prevseason: | 1998–99 |
| Nextseason: | 2000–01 |
The 1999–2000 Israeli Premier League season was the first in its history. The league had been formed to replace the former top division, Liga Leumit, which became the country's second tier.
Before the season started Ironi Ashdod and Liga Alef side Hapoel Ashdod were merged into F.C. Ashdod.
The season took place from the first match on 14 August 1999 to the final match on 27 May 2000. Hapoel Tel Aviv won the title, teams relegated were Hapoel Kfar Saba, Maccabi Herzliya and Hapoel Jerusalem.
| Rank | Player | Club | Goals |
|---|---|---|---|
| 1 |  Assi Tubi | Maccabi Petah Tikva | 27 |
| 2 |  Serghei Cleşcenco | Maccabi Haifa | 22 |
| 3 | Yossi Benayoun | Maccabi Haifa | 19 |
| 4 | Rafi Cohen | Maccabi Haifa | 18 |
| 5 | Ronen Harazi | Hapoel Tel Aviv | 17 |
| Kobi Refua | Bnei Yehuda | 17 | |
| 7 | Eli Abarbanel | Hapoel Petah Tikva | 14 |
| Amir Turgeman | Hapoel Haifa | 14 | |
| 9 | Nissan Kapeta | Ironi Rishon LeZion | 13 |
 Viktor Paço | Beitar Jerusalem | 13 | |
| Niv Tal | Hapoel Petah Tikva | 13 |