The Botswana Gazette reported that services at Shepherd Bushiri's Enlightened Christian Gathering Church (ECG) in Gaborone, were stopped due to concerns over the church's use of "miracle money" - promises of money appearing as if by magic.
Bushiri runs churches from Ghana to South Africa and has also claimed to have cured people of HIV and brought people back from the dead.
He came under fire last year after it emerged he was charging as much as £1,500 to attend a gala dinner with him.
In a video shared online, Bushiri - who has more than 2.3 million likes on Facebook, appeared to walk on air.
The government has now announced that the church will be shut permanently.
ECG has not publicly commented on its closure.
