Eric Thayer/Reuters
A draft of an arrest warrant for Fernandez was found in the garbage at his home, according to the NY Times.
He also called for the arrest of Argentine Foreign Minister Hector Timerman.
The prosecutor, Alberto Nisman, accused the two of covering up Iran's involvement in the decades old bombing of Amia, a Jewish organization in Buenos Aires. It was the worst terrorist attack in Argentine history, and 85 people died.
In a report detailing the findings of his investigation, Nisman said that Kirchner and Timerman protected the bombers, who were allegedly financed by Iran. They did so, said Nisman, in order to secure a deal - a food for oil exchange between Argentina and Iran.
Argentina is an energy poor country, but its leaders have contested this motive saying that Iran's oil is too heavy for the country to refine.
Regardless, Nisman's report documents phone calls between Argentine and Iranian leaders, over which secret negotiations were made. The calls were intercepted by Argentine intelligence, and also show that the government tried to deflect suspicion that Hezbollah members financed by Iran were behind the Amia bombing.
Nisman was about to present the 289 page report to Argentina's legislature before he was found dead in his apartment. It was locked from the inside.