Resonant excitations of confined systems have aroused much attention because of their potential application in future microwave devices and spintronics. Under resonant excitations, the motion of topo-logical objects exhibits circular, elliptical or even stadium-like dynamics. However, more complex non-linear resonant excitations of topological objects in confined systems have seldom been reported and the associated physical mechanism remains unclear. Here, we present an observation of flower-like resonant excitations for coupled skyrmions in Co/Ru/Co nanodisks activated by a single-frequency microwave magnetic field by means of numerical simulation. We find that flower-like dynamics of coupled skyrmions is always accompanied by an excitation of an eigenfrequency near 1.15 GHz, which is strongly associated with the large non-local deformation of the topological density distribution of coupled skyrmions. These results distinguish a skyrmion from other topological objects in dynamics and will be instrumental to the manipulation of skyrmions for applications.