Polye described it as "unbecoming and indecorous" and urged them to put it to a rest.
Polye commended the officers from the top hierarchy of the forces for pledging each other to investigate the fight.
Polye said he wished those who have been hospitalised well, adding he was looking forward to their recovery from the hospital.
He condemned the looting of shops at 3-Mile and Erima by opportunists and also called on police to arrest those who instigated it.
Polye has called on the government to make funds available for the investigation into the incident and its aftermaths.
According to reports, the fight began at Boroko, NCD in the early hours of Saturday when police attempted to arrest intoxicated soldiers.
He also condemned the killing of a senior police officer in Western Highlands in the line of duty.