Discontinuously coupled cylindrical shell-plates or plate-like structures are common components of underwater vehicles, and their vibration characteristics change significantly due to modal coupling. The vibration of discontinuously coupled annular plate-cylindrical shell structures is analyzed based on the wave propagation method(WPM) and virtual spring(VS). Taking uniform annular plates and cylindrical shells as spectral elements, the displacement solutions are described by the trigonometric function and Bessel function respectively, and the vibration responses of the annular plate-cylindrical shell with arbitrary boundaries are obtained. Based on VS and weighted least square norm least square method(WLSNLSM), the discontinuous coupling between the annular plate and cylindrical shell is described as the non-uniform distribution of stiffness of virtual spring by continuity condition, and the dynamic stiffness matrices of continuously and discontinuously coupled structure can be obtained simultaneously. The reason for vibration characteristic change under discontinuous coupling is explained from the perspective of modal superposition. Finally, a finite element model is established to verify the accuracy of the proposed method. The influence of general discontinuous coupling on the dynamic behavior of shell structure is analyzed by numerical examples, which provides useful guidance for structural vibration analysis with discontinuous coupling.