After recording these two albums with Los Sabrosos del Merengue, Manuel decided to pursue a solo career. In June 1994, Manuel left the group and in October 1 of the same year debuted as a solo artist. Several months later, he released his first solo album titled Rey De Corazones. The album was certified platinum after a few weeks. With the success of the album, on November, 1995, Manuel presented himself at the Luis A. Ferré Performing Arts Center selling out six shows.
In 1996, he released his second album titled Auténtico followed by concerts at the Guaynabo Performing Arts Center and at the Roberto Clemente Coliseum. Manuel released his next album titled Es Mi Tiempo in 1998 which included the hits Como Duele, Margarita, and a cover of Alejandro Sanz' song Corazón Partío. The album took him on a tour through Spain where the album was certified gold. His next album, Lleno De Vida, preceded a second presentation at the Roberto Clemente Coliseum. This concert was recorded and later released on CD.
After a change of labels and a move to the United States, Manuel released the album Serenata in 2003, which included covers of traditional romantic songs. The album sold over 100,000 and Manuel followed it with yet another presentation at the Coliseum in 2004. For this album, he was also nominated for a Latin Grammy.
In 2007, he released another album, Tengo Tanto, which included fusions of merengue with other Caribbean rhythms like vallenato. Manuel was one of several artists selected to perform in "KQ Live Concert" on September 27, 2008, organized by KQ 105 FM, the event included several renowned artists from Puerto Rico and other Latin American locations