Chaos-based encryption schemes have been studied extensively, while the security analysis methods for them are still problems to be resolved. Based on the periodic orbit theory, this paper proposes a novel security analysis method. The periodic orbits theory indicates that the fundamental frequency of the spiraling orbits is the natural frequency of associated linearized system, which is decided by the parameters of the chaotic system. Thus, it is possible to recover the plaintext of secure communication systems based on chaotic shift keying by getting the average time on the spiraling orbits. Analysis and simulation results show that the security analysis method can break chaos shift keying secure communication systems, which use the parameters as keys.