||Qualification or relegation
|1||Infonet (C) (P)||36||26||5||5||94||33||+61||83||Promotion to the Meistriliiga|
|2||Flora II||36||20||9||7||66||32||+34||69||Ineligible for promotion|
|3||Rakvere Tarvas (Q)||36||21||5||10||66||58||+8||68||Promotion play-off|
|4||Tartu SK 10||36||15||9||12||65||58||+7||54|
|6||Kiviõli Tamme Auto||36||12||8||16||78||83||−5||44|
|8||Tammeka II (Q) (O)||36||10||7||19||55||83||−28||37||Relegation play-off|
|9||Pärnu Linnameeskond (R)||36||9||9||18||43||72||−29||36||Relegation to the II Liiga|
|10||Kohtla-Järve Lootus (R)||36||6||1||29||40||103||−63||19|
Updated to games played on 4 November 2012.
Source: Estonian Football Association (in Estonian)
Rules for classification: Points; Least withdrawals or annulled matches; Overall wins; Head-to-head points; Head-to-head goal difference; Goal difference; Goals scored.
If two or more teams on the top have the same amount of points by the end of the season, the aforementioned rules will not apply and additional game(s) will be played to determine the champions.
(C) = Champion; (R) = Relegated; (P) = Promoted; (E) = Eliminated; (O) = Play-off winner; (A) = Advances to a further round.
Only applicable when the season is not finished:
(Q) = Qualified to the phase of tournament indicated; (TQ) = Qualified to tournament, but not yet to the particular phase indicated; (RQ) = Qualified to the relegation tournament indicated; (DQ) = Disqualified from tournament.