This study investigated the applicability of a tracking photovoltaic (PV) system installed in the roof area of a commercial building. Because PVWatts is the only PV module with a tracking feature in EnergyPlus, its electricity generation was validated through comparisons with detailed PV modules in EnergyPlus. The tracking PV system generated 26.8–35.5% more electricity annually than a fixed system in the climate of Incheon (S. Korea). The load coverage analysis of the tracking PV system was conducted with the reference commercial building model in EnergyPlus. Approximately 14% of the total building electric demand, including heating, ventilation, and air-conditioning; lighting; and equipment, was met by one PV array. Finally, the life cycle cost analysis of the tracking PV system was conducted by considering the net present value, which includes the initial installation and operation costs. The initial investment was returned after approximately 8 years, assuming between two and six tracking PV arrays were installed. Moreover, up to 26.8% cost savings were achieved in 15 years compared to the case without any PV arrays.