The corruption case, involving the payment of bribes by meatpacker JBS SA, had paralysed Temer’s reform agenda for six months and weakened his government.
Temer was accused of taking bribes and condoning the payment of hush money to a jailed politician in plea bargain testimony by Joesley Batista.
It is the second set of criminal charges filed against President Michel Temer, based on the plea-bargain testimony of the owners of the world’s largest meatpacker, JBS SA.
The new investigation is based on a wiretapped conversation of a former Temer aide who discussed shaping the decree in return for bribes channelled from a port operator to the president.
The arrests were ordered by Supreme Court Justice Edson Fachin, who agreed to a request by Brazilian Prosecutor-General Rodrigo Janot.
Brazilian federal judge Sergio Moro said there is still lack of interest from the country’s political establishment to fight corruption, despite the political and economic crisis the practice sent the country into.