Monitoring a ground source heat pump can provide important insights into its working, but to study the behaviour of the borehole heat exchanger (BHE) we require monitored data for the whole period of operation. In practice, the monitored data often has periods of missing data. We propose a method to estimate the load during the periods of missing data based on the fluid temperature after that period. The method determined the missing load with negligible error, for the case of a BHE that behaves exactly like the model describing it. A sensitivity analysis showed that the estimated load is highly sensitive to errors in measured load and fluid temperature. The method was applied to a real monitored BHE, the magnitude of estimated loads were unreasonably high, but the overall deviation between the measured and simulated values of fluid temperature decreased. Therefore, the high magnitude of missing load compensates for the lack of agreement between the model and the measured data.