Maritime emissions contribute significantly to global pollution, necessitating accurate and efficient monitoring methods. Traditional methods for tracking ship emissions often face limitations in real-time data accuracy, with wind measurement being a critical yet challenging aspect. This paper introduces an innovative mission planner module for unmanned aerial vehicles (UAVs) that leverages onboard wind sensing capabilities to enhance maritime emission monitoring. The module’s primary objective is to assist operators in making informed decisions by providing real-time wind data overlays, thus optimizing flight paths and data collection efficiency. Our experimental setup involves the testing of the module in simulated maritime environments, demonstrating its efficacy in varying wind conditions. The real-time wind data overlays provided by the module enable UAV operators to adjust their flight paths dynamically, reducing unnecessary power expenditure and mitigating the risks associated with low-battery scenarios, especially in challenging maritime conditions. This paper presents the implementation of real-time wind data overlays on an open-source state-of-the-art mission planner as a C# plugin that is seamlessly integrated into the user interface. The factors that affect performance, in terms of communication overheads and real-time operation, are identified and discussed. The operation of the module is evaluated in terms of functional integration and real-time visual representation of wind measurements, and the enhanced situational awareness that it can offer to mission controllers is demonstrated. Beyond presenting a novel application of UAV technology in environmental monitoring, we also provide an extensive discussion of how this work will be extended in the context of complete aerial environmental inspection missions and the future directions in research within the field that can potentially lead to the modernization of maritime emission monitoring practices.