In navigation satellites constellation comprised of multi-satellite,introducing an atomic clock ensemble in space is beneficial for improvement of its measurement accuracy and ability of autonomous operation.This paper summarizes the methods adopted currently at home and abroad towards atomic clock ensemble management in ground or in space and then proposes an initial design scheme of ACES management on a single satellite or among different satellite clocks within constellation which is based on the designing conception of atomic clock ensemble in navigation satellite constellation.Considering generation and characterize measurement of clock ensemble signal,anomaly detection and processing of atomic clock,this paper gives analysis and recommendation as for the key technologies and factors affecting ACES management,which will provide technical basis in designing a continuous,reliable,stable,accurate ACES running system for BEIDOU global navigation satellite system project.