The main purpose of this article is to investigate the nonlinear behavior and bifurcation phenomenon of the micro-deformation of a complex crystalline lattice in order to design more accurate controllers for these systems. First, the governing equations of a complex crystalline lattice, which includes the coupled nonlinear partial differential equations of the macro (acoustic) and micro (optical) modes, were extracted. After that the numerical code was validated and then the nonlinear behaviors and bifurcation of the micro- deformation were investigated. Since the equations and responses (macro and micro deformations) are expressed in the time-space domain, to study the behavior in the phase plane as well as the bifurcation of the micro-deformation, five indices were defined based on averaging or finding the maximum values in each spatial step. Also, the critical values of two parameters, their variations cause instability, were calculated. The former is the macro-load as an active parameter and the latter is the mechano-striction as a passive parameter that cause instability and bifurcation of the response.