An explosive affidavit has exposed the Ethics and Anti-corruption Commission Chief Executive Officer Halakhe Waqo as an alleged suspect in phase one scandal at the National Youth Service (NYS) where millions were lost.

The affidavit now puts the EAAC and its team on the spot over its effectiveness to fight corruption following the latest accusations that some of its senior officials have been interfering in cases with a view to protecting senior government officials.

Details submitted in the documents submitted in court indicate Mr Waqo pocketed Sh300 million proceeds of NYS.

The payment, People Daily reported on Friday, was partly to conceal evidence about the masterminds of the heist, who were subsequently acquitted.

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Adan Guracha, the officer in Department of Intelligence and Operations at the Ethics and Anti-Corruption Commission (EACC) swore the affidavit in what highlights the depth of morass in the criminal justice system.

As the lead detective in the scam, Mr Guracha revealed he stumbled on sensitive information linking Mr Waqo to the NYS scandal in 2015/16 in which he accuses him of bungling investigations.

Details about Mr Waqo’s alleged hand in the scam surfaced during an internal lifestyle audit in which he invested proceeds of NYS in a six-storey building in Isiolo Town.

Subsequently, the EACC CEO is said to have directed Guracha not to continue investigating the NYS scandal with dire consequences if he chose otherwise.

Nearly Sh971 million was lost in the first NYS scandal in which dozens of suspects were acquitted.