Modelling urban inundation and its associated health implications is numerous in its many applications. Flood modelling research contains a broad wealth of material, and microbial risk assessment has gained more popularity over the last decade. However, there is still a relative lack of understanding of how the microbial risk can be quantified from urban sewer flooding. This article intends to review the literature encompassing contemporary urban flood modelling approaches. Hydrodynamic and microbial models that can be applied for quantitative microbial risk assessment will be discussed. Consequently, urban sewer flooding will be the focus. This review found that the literature contains a variety of different hazards posed by urban flooding. Yet, far fewer examples encompass microbial risk from sewer system exceedance. To date, there is no evidence of a perfect model or technique, to carry out a quantitative microbial risk assessment from hydrodynamic simulations. The literature details many different methods. We intend to detail the advantages and limitations of each method. Along similar lines, hydraulic data constitutes a large part of the uncertainty which is inherent to this research field. Many studies in the literature detail data paucity and uncertainty in input data. As such, any advancement in this discipline will very likely aid future research.