League Top Scorer
| Position | Name | Club | Number of goals |
|---|---|---|---|
| 1 | Kaimar Saag | Levadia II Tallinn | 37 |
| 2 | Andrus Mitt | Kalju Nõmme | 35 |
| 3 | Sander Puri | Levadia II Tallinn | 18 |
| 4 | Jevgeni Gurtšioglujants | Levadia II Tallinn | 17 |
| 5 | Tiit Tikenberg | Kalev Tallinn | 16 |
| 5 | Artjom Dmitrijev | TVMK II Tallinn | 16 |
| 7 | Dmitri Kirilov | Kalev Tallinn | 15 |
| 8 | Kristian Marmor | Levadia II Tallinn | 14 |
| 9 | Eino Puri | Levadia II Tallinn | 12 |
| 9 | Anton Semjonov | Lootus Kohtla-Järve | 12 |
| 9 | Rainer Veskimäe | FC Kuressaare | 12 |
Read more about this topic: 2006 Esiliiga
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