This research examines the analysis of rotating truncated conical baskets reinforced by carbon nanotubes around the two independent axes. A time-dependent analysis is considered, and the nonlinear dynamic governing equations are extracted using the energy method. Carbon nanotubes (CNTs) reinforced the conical basket, and the structure's mechanical properties are determined based on the several distributions of carbon nanotubes. The novel design of a two-axis rotating conical basket is used as a centrifuge device and its resistance is investigated at different rotational velocities around the two independent axes. The partial differential governing equations are solved to obtain the structure's deformations. It can be seen that the structure undergoes much deformation against rotational velocities (significantly two-axis rotations). By reinforcing the conical basket with CNTs, its resistance increased, and a considerable part of the deformations resulting from the accelerated rotation will be neutralized. The results of novel presented formulation are validated, and the effectiveness of the dynamics formulation and solution method is proved. Also, the effects of various parameters on the research, such as the type of CNTs distribution and two-axis angular rotational velocities, are carefully examined. The results of this research can provide valuable information about the resistance of conical centrifuges reinforced with carbon nanotubes for other researchers. Also, it is noteworthy to mention that a novel approach has been presented for the dynamic deformation analysis of perforated centrifuges.