Chief Justice Willy Mutunga says he took the action following a report by the Banking Fraud Investigations Department.
Already, four Judiciary employees have been charged in court with conspiracy to defraud the institution following initial investigations.
The four, Ruth Wanjiku Muraya, Joab Ouko, Boru Guyo, and Benjamin Mutuku Nzioka however denied the charges before Nairobi Principal Magistrate Marisa Opondo.
The G-pay audit trail report from the Central Bank of Kenya showed that the Finance Director and another accountant were involved in the initial electronic funds transfer.
The user names and passwords of Muraya, Ouko, Mole and Nzioka were then used to make changes to the transfer instructions.
In September, Mutunga’s personal assistant told the police that the Judiciary was carrying out internal investigations and requested copies of the audit trail.
The investigation report has already been forwarded to the Director of Public Prosecutions (DPP).
The alleged fraud came to light after one of those involved attempted to withdraw some Sh12 million from the Judiciary accounts at CfC Stanbic Bank.