The season was divided into two halves (Apertura and Clausura) which ran from August 2002 to June 2003.

{{football box collapsible | round = 1st leg | date = 25 May 2003 | time = 16:00 (UTC−06:00) | team1 = Motagua | score = 1–1 | report = | team2 = Marathón | goals1 = Lozano 79' | goals2 = Martínez 65' | location = Tegucigalpa, Francisco Morazán | stadium = Estadio Tiburcio Carías Andino | attendance = 21,691 | referee = Óscar Bardales | result = | nobars =

Victoria were relegated to Liga de Ascenso, however they bought Honduras Salzburg's franchise and stayed in first division.

During halftime, Real España delayed more than 15 minutes and returned late to play the second half.

Such decision affected the final standings which resulted in Marathón owning the third place and sent Real España to fourth.