There is an ongoing dispute over the government's financial management of the eCitizen platform, after the Principal Secretary for National Treasury, Chris Kiptoo, refuted a report by the Auditor General, Nancy Gathungu, which claimed that over Ksh9.6 billion was missing.

The Auditor General's March 2025 audit report on the platform's operations in the financial year ending June 30, 2024 pointed out over Ksh9.6 billion in questionable transactions and poor oversight involving financial service providers and government ministries, departments and agencies (MDAs).

Appearing before the National Assembly's Public Accounts Committee on Thursday August 7, the PS revealed that Gathungu's findings were an inaccurate distortion of the facts.

He maintained that no money had been lost in the system. "I want to assure Kenyans that from 2023 onwards, no money has been lost, to my knowledge," the PS stated.