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Amongst human practices, agricultural surface-water management systems represent some of the largest integrated engineering works that shaped floodplains during history, directly or indirectly affecting the landscape. As a result of changes in agricultural practices and land use, many drainage networks have changed producing a greater exposure to flooding with a broad range of impacts on society, also because of climate inputs coupling with the human drivers. This research focuses on three main questions: which kind of land use changes related to the agricultural practices have been observed in the most recent years (~30 years)? How does the influence on the watershed response to land use and land cover changes depend on the rainfall event characteristics and soil conditions, and what is their related significance? The investigation presented in this work includes modelling the water infiltration due to the soil properties and analysing the distributed water storage offered by the agricultural drainage system in a study area in Veneto (north-eastern Italy). The results show that economic changes control the development of agro-industrial landscapes, with effects on the hydrological response. Key elements that can enhance or reduce differences are the antecedent soil conditions and the climate characteristics. Criticalities should be expected for intense and irregular rainfall events, and for events that recurrently happen. Agricultural areas might be perceived to be of low priority when it comes to public funding of flood protection, compared to the priority given to urban ones. These outcomes highlight the importance of understanding how agricultural practices can be the driver of or can be used to avoid, or at least mitigate, flooding. The proposed methods can be valuable tools in evaluating the costs and benefits of the management of water in agriculture to inform better policy decision-making.