Moderator Chris Wallace struggled to keep control of the debate because of frequent interruptions, primarily by the president.
Fox News anchor Mr Wallace had few options, other than pleading with the candidates, to make changes when rules that were agreed to by the campaigns were not followed.
The commission said on Wednesday the debate “made clear that additional structure should be added to the format of the remaining debates to ensure a more orderly discussion of the issues”.
One possibility being discussed is to give the moderator the ability to cut off the microphone of one of the debate participants while his opponent is talking, according to a person familiar with the deliberations who was not authorised to discuss the matter publicly and spoke on condition of anonymity.
The next presidential debate is a town hall format scheduled for October 15 in Miami.
Both campaigns say they expect to attend future debates.
The commission says it will announce its changes shortly.
