We reported earlier that the local government minister Lingson Belekanyama had also died.
The two senior ministers died within two hours of each other.
Over the weekend, Malawi's President Lazarus Chakwera made a special radio address to the nation calling for strict adherence to Covid-19 prevention measures following a sudden sharp rise in deaths and infections.
Mr Chakwera's office tweeted that the country had "entered the eye of this pandemic's storm".
He went on to announce a three-day period of mourning.