The main purpose of this article is to present the nonlinear unsteady behaviour for jet transport aircraft response to serious atmosphere turbulence in cruise flight and to provide the appropriate mitigation concepts for pilots in the pilot training course of the IATA – Loss of Control In-flight (LOC-I) program. The flight data of a twin-jet and a four-jet transport aircraft encountered serious atmosphere turbulence are the study cases for this article. This study uses flight data mining and fuzzy-logic modeling of artificial intelligence techniques to establish nonlinear unsteady aerodynamic models. Since the rapid change of aerodynamic characteristics in turbulence, so the study uses decoupled longitudinal and lateral-directional motion to identify various eigenvalue motion modes of nonlinear unsteady behaviour through digital 6-DOF flight simulation. It is found that the changes of the main flight variables in the aerodynamic scene and flight environment of the two aircraft are different, but the profiles of five eigenvalue motion modes are actually similar. Those similar eigenvalue motion modes can formulate preventive actions related to the flight handling quality for safe and efficient control by pilots to execute the flight tasks. The one with a large drop height during the ups and downs motion between the two is chosen to construct the movement mechanism of nonlinear unsteady behaviours. The assessments of dynamic stability characteristics of nonlinear unsteady behaviour based on the approaches of oscillatory motion and eigenvalue motion modes related to loss of control will be demonstrated in this article. To develop preventive actions, the situation awareness response to the induced mutation of nonlinear unsteady behaviour on the pilot’s operations will be a further research task in the future.