Solid waste management (SWM) is a key issue for sustainable development and environment protection, and waste collection and transportation (WCT) is one of the most important steps in managing solid waste. A well-designed SWM system with optimised location and capacity of waste transfer stations (WTSs) and final disposal facilities (FDFs) plays a critical role in waste management. However, uncertainties are inevitable in a general SWM system, which could involve in any stage of the waste management. In this paper, we propose to use the reliability analysis method to manage the uncertainties for the multiple-stage SWM system. Furthermore, an optimisation model is developed to maximise the reliability of SWM systems by optimising the allocation of waste treatment demand between facilities. We also generated an event-tree to analyse the failure mode of the whole system. Finally, a case study was undertaken in Hong Kong to demonstrate the effectiveness of the methodology. The case study results indicate that the proposed method can: (i) estate the risk level of a SWM system, (ii) provide a solution to improve the system reliability or reduce the risk level, (iii) analyse the potential contributions of different policies on the reliability index, (iv) identify the critical facilities in a SWM system.