Yes, the passport records for Obama, along with Hillary and McCain, were all accessed by employees at a firm that had a contract with the State Dept. The speculation is that Hillary and McCain’s files were just accessed as cover, to lessen the appearance that the breach targeted Obama. The firm that employed the people responsible just happened to be owned by John Brennan, the CIA officer who gave Bill Clinton his daily intelligence briefings while he was President.
Afterwards, Hillary got the Secretary of State job, and Brennan also got a position, as the Chief Counterterrorism Advisor to Obama.