Full spectrum and holospectrum are homogenous information fusion technology developed for the fault diagnosis of rotating machinery, which is extensively exploited in the analysis of the orbits of rotor-bearing systems. However, they are not adapted for non-stationary signals, nor can they be used for fusion analysis of vibrations of multiple bearing sections. By drawing inspiration from the multivariate variational mode decomposition (MVMD) and the complex-valued signal decomposition, we propose a method called multivariate complex variational mode decomposition (MCVMD). It can simultaneously extract the forward and backward components of multiple bearing sections and realize non-stationary complex signal decomposition of multiple bearing sections of the rotor. To achieve the visualization goal of condition monitoring, we propose the three-dimensional instantaneous orbit map (3D-IOM). It enables more features of shaft vibration of a rotor system to be displayed and offers a new way for the fusion analysis of vibration signals of multiple bearing sections of rotating machinery. Furthermore, making the most of the joint information, we also provide a high-resolution time-full spectrum (Time-FS) to display the forward and backward frequency components of multiple bearing sections. The effectiveness of the proposed method through both the simulated experiment and the real-life complex-valued signals is demonstrated in this paper.