The invention relates to a clock synchronization test method based on a redundant security system. The method comprises the following steps: verifying clock information and channel information of an active and standby system, demarcating all hierarchical possibilities according to a clock synchronization process, listing all factors needing to be considered for each hierarchical possibility, performing permutation and combination on the factors, removing duplicate or impossible situations, and modifying data at an input end or an intermediate stage by using a step-by-step test method to meet test requirements so as to obtain a clock synchronization test result. Compared with the prior art, the clock synchronization test method provided by the invention has the advantages of comprehensive and streamlined involved conditions, convenient data input and the like.