Estonian Meistriliiga 2006: final table of First division
| # | Club | M | W | D | L | Goal | Pts | GD | Result | |
|---|---|---|---|---|---|---|---|---|---|---|
| 1 | Levadia Tallinn | 36 | 30 | 4 | 2 | 114 - 29 | 94 | +85 |   Champion (Champions League) | |
| 2 | Narva Trans | 36 | 25 | 8 | 3 | 106 - 36 | 83 | +70 | Vice-champion (UEFA Cup) | |
| 3 | Flora Tallinn | 36 | 26 | 4 | 6 | 93 - 34 | 82 | +59 | UEFA Cup | |
| 4 | FC TVMK Tallinn | 36 | 22 | 6 | 8 | 83 - 37 | 72 | +46 |  National cup winner | |
| 5 | JK Maag Tartu | 36 | 13 | 9 | 14 | 65 - 68 | 48 | -3 | 1) | |
| 6 | JK Tammeka Tartu | 36 | 12 | 7 | 17 | 45 - 57 | 43 | -12 | ||
| 7 | FC Vaprus | 36 | 10 | 4 | 22 | 49 - 86 | 34 | -37 | ||
| 8 | FC Ajax Lasnamae | 36 | 6 | 7 | 23 | 35 - 104 | 25 | -69 | ||
| 9 | Viljandi Tulevik | 36 | 5 | 5 | 26 | 29 - 74 | 20 | -45 |  Relegated (Relegation Playoff) | |
| 10 | FC Warrior Valga | 36 | 3 | 2 | 31 | 16 - 110 | 11 | -94 | 2) | Relegated |
| Pts = Points M = Matches played; W = Matches won; D = Matches drawn; L = Matches lost; GD = Goal difference; | ||||||||||
| Notes: 1) JK Merkuur Tartu were renamed JK Maag Tartu. 2) FC Valga were renamed FC Warrior Valga |
Notes:
- Champion
- national cup holder
- participation in European competition
 - promoted
- relegated
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2005
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