Sir Bernard, then an inspector in South Yorkshire Police, was on duty at Sheffield Boys’ Club where families waited for news of relatives.
The IPCC is looking at how relatives were treated in the immediate aftermath of the incident.
It has received a complaint from the family of one fan who was wrongly named by an officer as being alive when he had in fact died.
The IPCC says it has passed a complaint about Sir Bernard to the Mayor’s Office for Policing and Crime (MOPAC) which is responsible for investigating complaints about senior Met officers.
However the police watchdog says it expects MOPAC to refer the complaint back to it.
In a statement issued on Monday, the IPCC said: “The MOPC is responsible for deciding whether complaints against the Commissioner should be recorded and whether they should be referred to the IPCC. However in this instance the IPCC expects the matter to be recorded and referred.”
Scotland Yard said Sir Bernard “will co-operate fully with any inquiries from the IPCC.”