|Top goalscorer||Tarmo Neemelo (41)|
FC TVMK's first title-winning Meistriliiga campaign came in some style with strikers Tarmo Neemelo and Ingemar Teever scoring most of the goals and veteran midfielder Andrei Borissov leading the team from midfield. Narva Trans finished in bronze-medal position after years of being fourth in the final table, while FC Flora have been busy rebuilding their squad and therefore not too upset by a disappointing fourth position finish. FC Kuressaare went out of the league via play-offs and Dünamo's defensive displays were awful and the team never seemed to have any kind of chance in staying up.
Tarmo Neemelo in the end scored 41 goals for the champions, and earned a move to top Swedish club Helsingborgs IF, Maksim Gruznov of Narva Trans scored 26 goals, Vjatšeslav Zahovaiko of FC Flora and Ingemar Teever for the champions scored 19 goals each. The latter secured a free transfer to Swedish outfit Östers IF.
|Pos||Team||Pld||W||D||L||GF||GA||GD||Pts||Qualification or relegation|
|1||TVMK (C)||36||30||5||1||138||21||+117||95||2006–07 UEFA Champions League First qualifying round|
|2||Levadia||36||28||5||3||97||25||+72||89||2006–07 UEFA Cup First qualifying round[a]|
|3||Narva Trans||36||23||6||7||99||34||+65||75||2006 UEFA Intertoto Cup First round|
|4||Flora||36||21||6||9||81||36||+45||69||2006–07 UEFA Cup First qualifying round[a]|
|10||Dünamo (R)||36||3||3||30||28||157||−129||12||Relegation to 2006 Esiliiga|
Rules for classification: 1) points; 2) number of wins; 3) head-to-head points; 4) head-to-head goal difference; 5) head-to-head goals scored; 6) goal difference; 7) number of goals scored.
(C) Champion; (R) Relegated.
- Flora qualified as Estonian Cup finalists
2–2 on aggregate. Lasnamäe Ajax won on away goals.
Kuressaare kept their place in the Meistriliiga, after Pärnu Tervis decided not to make the promotion.
|2||Maksim Gruznov||Narva Trans||26|
|8||Kristjan Tiirik||Tammeka Tartu||15|
|9||Anton Sereda||Merkuur Tartu||14|
- "MÄNGUDE AJALUGU" (in Estonian). Estonian Football Association.