The joined shell with complex boundary condition is widely employed in the marine propulsion. And the traveling wave mode of the joined shell with rotational motion usually plays an important role in the marine propulsion. For prompting the application of functionally graded materials (FGMs) in ships and ocean engineering, the boundary conditions of a shell structure were simulated by the spring, the dynamical model of the rotating FGMs joined conical-cylindrical shell was derived, and the traveling wave mode of the rotating FGMs joined conical-cylindrical shell was analyzed. Firstly, considering the influence of the Coriolis force and centrifugal force produced by rotation, energy equations of the joined shell with the boundary spring and connecting spring were derived based on the Love’s thin shell theory. Then, the displacement function could be assumed based the Chebyshev polynomial, and the modal frequency equation was derived. Finally, the modal frequency of the traveling wave was solved by the Rayleigh-Ritz method. Based on the convergence analysis, the stiffness values of corresponding springs and the truncated terms of the Chebyshev polynomial were given. The effects of the circumferential wave number, volume fraction exponent, cone angle, rotational speed and the general boundary condition on the traveling wave mode were discussed. Results indicate that the bifurcation behavior with respect to the forward wave and backward wave are notable with the increase of rotating speed; the stiffness of axial spring has a greater effect compared with other springs; compared with the traditional energy method, the efficiency can be reduced for the repeated calculation and the elastic boundary condition has a large influence on the traveling wave mode, meaning the necessity of employing the spring to simulate the boundary condition.