A joint operation by military and police personnel killed Ali Kalora in a shootout at a village on Sulawesi island on Saturday afternoon, according to a police statement.
Another terrorist, identified as Jaka Ramadhan, also known as Ikrima, was also shot dead, police said, adding that a hunt was underway for four other MIT members.
Explosives, an M16 rifle, and two machetes were found, along with other evidence of terrorist activity, following the raid.
Kalora took over as MIT leader after security forces killed its previous head, Santoso, in 2016.
Authorities believed MIT was behind the brutal murder of four villagers in central Sulawesi in November 2020, although the group did not claim responsibility.
Its former leader Santoso was once the most wanted terrorist in Indonesia. Santoso was one of the first terrorists in Indonesia to pledge allegiance to ISIS.
Ridwan Habib, a terrorism analyst with University of Indonesia, said the Sulawesi-based MIT group was unlikely to survive its leader’s death, although he suspected its members who are on the run would continue to fight security forces.
“Part of their ideology is seeking death because they believe death will take them to heaven. With their leader dead, they will seek death as well,” he told Reuters. “I’m not sure there will be a reestablishment [of MIT] or a new leader elected.”
Police last month arrested 53 militants suspected of planning an attack on Indonesia’s independence day.
The country’s deadliest terrorist attack took place on the tourist island of Bali in 2002, when bombers killed 202 people, most of them foreign tourists.
Epoch Times staff contributed to this report