Mnangagwa, during a Heroes Day speech in Harare, said the allegations were "unjustified attacks by our perennial detractors, both inside and outside our border".
"The divisive falsehoods and concoctions by renegades and supremacists who want to pounce on our natural resources will never win the day. Truth shall triumph over lies, and good over evil," said Mnangagwa, who replaced Robert Mugabe after a 2017 coup.
Hopes that Mnangagwa would unite a polarised country and revive a stricken economy following the Mugabe era have been dashed. Like his predecessor, Mnangagwa accuses the West of funding the opposition to destabilise the country.
Human rights groups and lawyers say activists are being arrested, abducted and tortured after they called for street demonstrations on July 31, which the government snuffed out by deploying security forces.
The main opposition Movement for Democratic Change says about 30 of its members have fled their homes fearing abduction or arrest by state security agents.
The events in Zimbabwe have worried South Africa enough that President Cyril Ramaphosa send two veteran politicians Sydney Mufamadi and Baleka Mbete to Harare.
The envoys arrived on Monday and were expected to meet Mnangagwa later in the day, a government official said.
Critics also say Mnangagwa is using the cover of a Covid-19 lockdown to silence critics as anger grows over 737 percent inflation – which has brought back memories of hyperinflation under Mugabe a decade ago – a collapsing health sector and shortage of public transport.
Mnangagwa, however, said his government had set a firm foundation "for a thriving constitutional democracy, and a just, open, accountable and prosperous society".
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