<p>Agricultural systems are challenged by limited water availability, high energy demand, and the need to maintain global food security. The Water-Energy-Food (WEF) Nexus is a critical framework for understanding these interactions and supporting strategies that improve resource use efficiency and system performance. This comprehensive review systematizes, analyzes, and discusses different applications of the WEF perspective in agricultural systems using the Preferred Reporting Items for Systematic Reviews and Meta-Analyses (PRISMA) methodology. The review covers three main thematic areas within agricultural WEF applications, including climate change and carbon footprint, renewable energy and bioenergy, and integrated systems such as agrivoltaics and aquaponics. Research activities are mainly concentrated in Asia, particularly China, followed by Iran and the USA. Reported improvements in resource efficiency are associated with optimized irrigation and fertilizer management and the replacement of fossil fuels with renewable energy sources, highlighting the growing concern over greenhouse gas emissions. Overall, WEF approaches can enhance productivity, reduce water stress, improve food security, and support low-carbon agricultural strategies. However, broader implementation is constrained by limited tradeoff assessments, scarce reliable data, the need for improved optimization tools and predictive models, lack of standardized WEF indicators and insufficient policies focused on sustainable solutions. Advancing WEF applications will require stronger policy frameworks, investment mechanisms and cross-sector collaboration, supported by reliable data, indicators, and modeling tools to enable scalable and resilient agricultural solutions.</p>