It began on Friday, January 15, 1999, and ran until May 9, when the regular season ended.
In the final Toluca defeated Atlas and became champions for the fifth time.
Source: MedioTiempo Santos won 7–5 on aggregate.
Atlas advanced for being the higher seeded team.
Puebla was relegated to Primera División 'A', however, the team remained in the First Division because its owners bought the Unión de Curtidores, a club that had won promotion to the First Division.