The agency seal on the floor of the lobby at CIA headquarters. (Bill O'Leary/The Washington Post) The former senior CIA official found with more than $40 million worth of gold bars in his house allegedly created a fake, highly classified intelligence program that he used as a conduit to funnel millions of dollars for his personal use, according to people familiar with the criminal investigation.David J. Rush, who was arrested last month and charged with one count of theft of public money, constructed what is known as a “special access program,” a sort of black box for the most secret…