We propose a system analysis approach to address the challenges associated with the rapid changes in pulsed light technology within unpredictable and time-varying systems. Additionally, we introduce a new virtual system fish scale controller. This approach considers the unpredictable nature of pulsed light and ionization events and involves developing a comprehensive full-order node model that accounts for both forward and reverse effects. The fish scale virtual controller ensures a global balance between the primary and auxiliary inputs, while maintaining stability in the input of the sub-node system. By employing linear approximation, we aim to minimize errors caused by nonlinear flow variations. The virtual system’s various reverse balance parameters effectively counteract the fluctuations in light and enable stable tracking control of the time-varying system represented by the full-order node model. Finally, we present a practical example of intense pulsed light to demonstrate the efficacy of our system analysis approach and the fish scale virtual controller.