Aalto New Campus Complex (ANCC) is a recently inaugurated educational facility at Aalto University, located in Otaniemi (Espoo), Finland. Within over 40,000 m2, it comprises two faculties, a shopping center, recreational areas, and a metro station. ANCC is also a large-scale application of Ground Source Heat Pump (GSHP)−Borehole Thermal Energy Storage (BTES) in Finland, comprising an irregular BTES field of 74 boreholes with an overall length of roughly 23 km and 4 million m3 of energy storage. Therefore, accurate monitoring of the GSHP−BTES energy system is crucial for sustainable and efficient long-term operation. Due to the fundamental issues affecting the accuracy of all thermal energy meters, a novel methodology adjusting for consistency of the measured data (in order to accomplish daily energy balance on both sides of the GSHP) is developed. The proposed methodology is used also in conjunction with reconstruction of missing relevant data before April/May 2020 by applying linear regression techniques. The developed data management is considered essential due to its capability to handle measured data with high uncertainty (thermal meters) by using highly accurate data regarding the GSHP power demand. Additionally, operational data and relevant GSHP performance indicators for the 18-month period starting from July 2019 is presented and analyzed.