The 1999 season of the Torneo Descentralizado was the 84th season of the top category of Peruvian football (soccer). It was played by 12 teams. The national champion was Universitario.
The national championship was divided into two half-year tournaments, the Torneo Apertura and the Torneo Clausura. Each was played on a home-and-away round-robin basis. The winners of each would play for the national title in a playoff. If the same club had won both tournaments, it would have won the national championship automatically.
Following-season Copa Libertadores berths went to the champion, as well as to the best other team in the aggregate table. The bottom team on the aggregate table was relegated, while the eleventh place held a promotion play-off against the winner of the Segunda División (Second Division).