On March 31, 2006, David A. Vaudt from the Auditor's Office for the State of Iowa released a report concerning an investigation of misuse of federal and state funds to pay excessive salaries and bonuses to three executive members at CIETC.
In 2007, U.S. Attorney Matthew Whitaker announced the indictment of four persons affiliated with the agency, who were accused of collectively stealing more than $2 million from the agency over a three-year period.