Among the 592 former officials are also vice-president Alvaro Garcia, ministers, their deputies, chiefs of cabinets and other officials, the agency quoted Mathias Kutsch, the Justice Ministry's chief anti-corruption investigator.
The investigation would "identify who are the people who committed corruption crimes, who diverted public resources, and chiefly, who diverted them to other countries,” Kutsch said.
The suspects were part of the administration from November 2006 to 2019. Their family members will also be investigated, according to Anadolu Agency.
Morales slammed the move on Twitter, saying that the de facto Justice Minister “puts himself above the judges dictating a sentence, without a prior trial,” and added that the new regime was violent and that it was operating with false evidence serving defamation.
Morales, his deputy and a number of officials resigned in November following massive anti-government protests that erupted after elections in October. The President was accused of vote-rigging.
He and a few associates fled to Mexico and sought asylum, while a group of around 10 former officials are hiding inside the Mexican ambassador's residence in La Paz.
Interior Minister Arturo Murillo meanwhile announced the country had activated an international arrest warrant against Morales.
