In the 70s, regime officials kept record of his activities and investigated incidents involving the star, including alleged attacks to his home in the coastal city of Santos.
The files were unveiled by the Sao Paulo state government.
The military dictatorship ruled Brazil from 1964-85, with officials constantly trying to identify possible opponents to the regime and acting to reprimand radical leftists.
Pele had already been linked to military dictatorship investigations after he allegedly received a manifest requesting his help to try and influence the release of political prisoners.
The documents on Pele were among several files on well-known Brazilians released online by the state government.