Pebble-bed reactors are an important class of advanced reactors under consideration for various applications where their fuel would give a significant advantage in siting and high-quality heat production. However, the disposal of their fuel is not as thoroughly studied as other fuel forms. In this study, pebble fuel is analysed in a well known spent fuel canister design to characterize the behavior of this fuel form over a long time scale. The results indicate that after approximately 100 years, decay heat is significantly reduced and the maximum temperature in the canister equalizes with the external temperature. The simulation goes on to an end time of a million years, demonstrating the capability of dealing with long time scales efficiently. We conclude that the canister temperatures seem manageable even with very aggressive loading times and while there are several improvements to be implemented in the future, MOOSE is technically capable of simulating the required scenarios.