Heat is generated in municipal waste containment facilities due to the chemical and biochemical evolution of waste. Sometimes it is required to check if the level of heat generated during the deposit lifetime may damage or reduce the isolating properties of the liners. That verification relies on appropriate evaluation of heat and moisture transfer through the barrier as well as the evolution of stress fields. This paper presents an example of such verification based on a coupled thermo-hydro-mechanical (THM) analysis for the case of a compacted clay liner designed to isolate a deposit of baled municipal waste. The evaluation of the different boundary conditions for the analysis is discussed in detail. The case study corresponds to a deposit of baled waste and the evaluation of thermal loadings on the lining is performed using thermal discrete elements.