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Food consumption is fundamental for urban households if they are to sustain production and daily life. Nitrogen resulting from food consumption has significantly contributed to pollutant emissions in urban ecosystems. Taking Xiamen city, a rapid urbanizing area of southeast China as a case study, we evaluated the food-sourced nitrogen consumption of households based on a large simple onsite questionnaire survey, as well as differences between households in the consumption of plant-based and animal-based foods. A material flow analysis (MFA) was conducted to simulate the urban metabolism of food-sourced nitrogen and environmental emissions among different income groups. The impacts of household attributes, plant-based food consumption, and animal-based food consumption on environmental nitrogen emissions were examined with a structural equation model (SEM). Our results show that the surveyed households’ diets were more plant-based and less animal-based. Aquatic products and livestock were the source of 43.7% of food-sourced nitrogen, and 84.5% of the food-sourced nitrogen was discharge into the environment through direct discharge and waste treatment. Soil, water, and air emissions accounted for 62.8%, 30.1%, and 7.1% of the food-sourced nitrogen, respectively. Household income, household size, and household area are all associated with accelerating increases of nitrogen emissions released into the environment, though middle-income group households have the highest food-sourced environmental nitrogen emissions. On this basis, we discuss how to better manage the urban metabolism of food-sourced nitrogen, so as to improve urban household consumption, lower nitrogen emissions, and improve food security.