The rotor balancing system is essential for identifying rotor imbalance in high-speed rotors such as micro-gas turbine rotor systems. Commercially available balancing equipment is built for heavy rotors, whose weights are typically above 1 kg. After installing the compressor, turbine and bearings, the micro-gas turbine rotor only weighs about 380 g. In order to accurately balance the micro-gas turbine rotor, the balancing system needs to be custom-designed for the rotor's tiny mass and compact dimensions such that the rotor does not interfere with the supports during rotation. This project focuses on designing and fabricating a custom-made rotor balancing system for a micro-gas turbine rotor. This rotor balancing system is designed using SolidWorks®. The natural frequency analysis of the balancing system was performed through analytical formulations and finite element software (ANSYS®) and validated with impact hammer tests.