The State Security Agency is probing more than 860 cases of corruption involving millions of rand and government employees.
This is contained in the Public Service Commission (PSC) report tabled in Parliament yesterday.
Most of the cases came from public entities and the SSA has been instructed to finalise the corruption cases.
The investigation by the SSA covers the period from 2014 to last year.
In the report, the PSC said during the 2014/15 and 2015/16 financial years most of the cases investigated related to fraud and bribery against government officials.
The government officials were investigated for fraud and bribery, mismanagement of state funds, criminal conduct, unethical conduct, identity document theft and appointment irregularities.
They also faced charges of selling RDP houses, procurement irregularities and the abuse of government resources.
Despite the high number of cases two years ago, that number dropped last year.
The report said during the 2014/15 period there had been a total of 867 cases investigated by SSA, but in the following financial year the number dropped to 668 cases.
“During the 2014/15 financial year a total of 49 officials were charged with misconduct relating to corrupt activities,” said the PSC report.
“The disciplinary hearings against 29 officials have not been finalised,” it said.
The report said sanctions have been imposed against some of the officials whose cases have been finalised.
Five officials were fired, two were given fines, 10 were issued with final written warnings, two were criminally prosecuted and one official resigned before the disciplinary hearing was finalised.
In the 2014/15 financial year the government was able to recover more than R104 million from the officials found guilty of corruption.
The PSC report also raised concerns that some senior officials in government do not make their financial disclosures as required by the law.
It added that ministers have an obligation to submit disclosure forms on time and to report on action against directors-general who fail to make financial disclosures.