Energy in microgrids (MGs) can now be generated from a variety of renewable sources, but their effective and sustainable use is dependent on electrical energy storage (EES) systems. Consequently, the expansion of MGs is greatly reliant on EES systems. The high infiltration of electric vehicles (EVs) causes some problems for the smooth functioning of the electric power system. However, EVs are also able to offer ancillary services, such as energy storage, to power systems. The research presented in this paper aims to develop a novel frequency regulation (FR) approach for biogas diesel engines (wind), the organic Rankine cycle (ORC), and solar-based two-area islanded microgrids with EVs in both areas. This article discusses the introduction of a fuzzy logic controller (FLC) for FR with scaled factors configured as proportional integral (PI) and proportional derivative with filter (PDF), i.e., a FLC-SF-PI-PDF controller. A recently created modified dragonfly algorithm is used to determine the best values for the controller parameters. To justify the effectiveness of the proposed controller with the presence of EVs, the execution of the proposed controller is associated with and without the presence of EVs. This research also looks at the different uncertain conditions, non-linearities, and eigenvalue stability analysis to validate the supremacy of the proposed approach.