This paper demonstrates the design of robust proportional resonant (PR) controller using negative imaginary (NI) theorem for voltage control of three-phase islanded microgrid (MG) application. While operating MG as the islanded mode, different types of random and unknown load dynamics affect the MG. These loads eventually deteriorate the proper execution of MG-inducing disturbances in voltage and current. Therefore, to improve the performance of the three-phase MG, a simple, second-order controller is designed with the combination of NI theory and PR (NI-PR) controller. This controller is capable of providing higher level of damping as well as excellent stability properties. The stability and effectiveness of this controller are examined through imposing uncertainties, in terms of several load dynamics as well as different fault conditions. The comparison with respect to linear quadratic regulator and model predictive controller also ascertains the robustness of the designed controller. The NI-PR controller and the system are simulated in MATLAB/SIMULINK platform. Keywords Islanded microgrid • Negative imaginary theory • Second-order controller • Voltage control • Robust performance 1 Introduction Keeping the pace with progressive advanced facilities, demand for energy is rising lavishly. But due to the environmental protection, depletion of fossil fuel and sustainable development resulted in critical need for a cleaner energy technology (Bouchebbat and Gherbi 2017; Islam et al. 2020c). Hence, renewable energy sources are playing a vital role in today's power system applications. Some popular renewable energy sources are wind energy, photovoltaic (PV) system, biomass, wave energy, hydro-power, etc. (Coelho et al. 2018). Renewable energy sources-based distributed generators (DGs) are mainly small-scale power generation