Morales became a member of the BSN's Cangrejeros De Santurce in 1974, when he was only 14. Four years later he became a member of Puerto Rico's national basketball team. Morales didn't go to the Montreal Olympics because, as a minor in 1976, he still couldn't join the national team, the 1980 Olympics in Moscow, because Puerto Rico's Olympic committee decided to join the United States in the boycott, and the 1984 Los Angeles Olympic Games because the national team didn't qualify for those. However, when he did get to go to the Olympics, for the Seoul games in 1988 and the Barcelona games in 1992, he impressed international audiences with his skills and savvy.
In between Olympics and Olympics, he became a dangerous shooter from the 3 point area in the BSN. In 1976 , the Cangrejeros became the Mets de Guaynabo, and Morales, aided with the help of his brother in law the half Puerto Rican-half Mexican Federico Fico Lopez, took the Mets to a total of 8 BSN finals, winning 3 championships along the way. The 1989 finals where they won it in 7 games beating the Leones de Ponce, featured a classic game 7, where they had to go into overtime before edging out an 89-84 decision.
Morales had his eyes set on the NBA, but after attending college in the United States, the lack of understanding of English became too difficult for him to overcome, and he decided to return to Puerto Rico.
He also holds a CPA (Certified Public Accountant) license.
After he retired, the coliseuum where he played for most of his career, Guaynabo's Mets Pavillion, was renamed the Mario Quijote Morales Coliseum. There is a large painting of him in a Guaynabo Mets uniform just to the entrance of the coliseum.