| Season: | 1993–94 |
| Winners: | Flora (1st title) |
| League Topscorer: | Maksim Gruznov (21) |
| Nextseason: | 1994–95 |
The 1993–94 Meistriliiga was the third season of the Meistriliiga, Estonia's premier football league. Flora won their first title after beating Norma in the title play-off as regular season had ended in a draw.
| Rank | Player | Club | Goals[1] |
|---|---|---|---|
| 1 |  Maksim Gruznov | Trans/Tevalte | 27 |
| 2 | Sergei Bragin | Norma/Tevalte | 19 |
| 3 | Anatoli Novožilov | Tevalte | 14 |
| Nikolai Toštšev | Trans | ||
| 5 | Juri Braiko | Eesti Põlevkivi | 10 |
| Aleksandr Žurkin | Norma | ||
| 7 | Seppo Vilderson | Norma | 9 |
| 8 | Andrei Borissov | Norma/Tevalte | 8 |
| Urmas Kirs | Flora | ||
| Juri Tšurilkin | Norma |