The Challenge Cup tournament was discontinued and the new format featured 23 teams – 9 from Lithuania, 8 from Estonia, 5 from Latvia and 1 from Kazakhstan.

[2] Ventspils became the first ever Latvian team to win the tournament by beating Lithuanian side Prienai 161–142 on aggregate score in the finals.

If teams are level on record at the end of the Regular season, tiebreakers are applied in the following order: The Last 16 phase ran from January 8, 2013 to February 26, 2013.

If teams are level on record at the end of the Last 16 phase, tiebreakers are applied in the following order: In the knockout phase rounds will be played in a home-and-away format, with the overall cumulative score determining the winner of a round.

Source: Baltic Basketball League player statistics Last updated: March 5, 2013.Source: BBL Homepage