FC Levadia was one of four clubs from Estonia that had teams playing during Gothia Cup 2012. They participated with one team in Boys 12. In addition to FC Levadia, 140 other teams from 32 different countries played in Boys 12. They were divided into 34 different groups, whereof FC Levadia 1 could be found in Group 16 together with Vallens IF, JSSL Arsenal Singapore and Saltsjöbadens IF 2. FC Levadia 1 continued to Slutspel A after reaching 2:nd place in Group 16. In the playoff they made it to 1/32 Final, but lost it against Värmdö IF 1 with 3-4. In the Final, IF Elfsborg won over Efthymiades FA and became the winner of Slutspel A in Boys 12.