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This paper presents an overview on the risk assessment approaches for inundation of metro systems based on regional flood risk assessment methods. Detailed summarization is conducted based on four types of regional flood risk assessment methods, including (i) statistical methods, (ii) multi-criteria analysis, (iii) analysis using geographical information system (GIS) and/or remote sensing (RS), and (iv) scenario-based analysis. After reviewing of the existing methods in literatures, a perspective approach of evaluating inundation risk for metro systems is proposed. The proposed approach has the following two characteristics: (i) from regional to local, and (ii) from qualification to quantification. The Guangzhou Metro System is used to demonstrate the application of the perspective methods for flood risk assessment of metro system. The risk prevention procedure uses an iterative cycle that includes risk assessment, precaution, prediction, and technical countermeasures. The integration of GIS, global position system (GPS) and build information modelling (BIM) for development of early warning and risk management systems is recommended to manage the risks of inundation of metro system.