The rapid advancement of unmanned aerial vehicles (UAVs) has introduced new challenges in overseeing and managing their flight operations due to their diverse flight dynamics and performance metrics. To address these complexities, this study introduces a concept of trajectory conformity aimed at enhancing the supervision and control of UAV flights. Trajectory conformity, from a regulatory perspective, is defined as the distribution of deviations between a UAV’s actual flight path and its intended trajectory, offering a measure of system-wide operational error. The concept of conformity is hoped to simplify and strengthen the monitoring process to ensure conflict-free drone flying. The present work is also concerned with the development of a comprehensive UAV collision risk model grounded in trajectory conformity analysis. The normality and homogeneity of UAV trajectory deviations are validated by evaluating the trajectory data obtained from real-world UAV flights. Well clear thresholds between two UAVs operating in three orthogonal directions within the same airspace have been established by the developed model. The results obtained demonstrate the effectiveness in omni-encounter scenarios, underscoring the potential to strengthen safety measures. The present work is expected to enhance UAV safety systems, such as detect and avoid (DAA) and unmanned aircraft system traffic management (UTM), by enabling real-time collision warnings within predefined safety thresholds, supporting proactive risk mitigation. Furthermore, the model’s versatility allows it to be applied to various UAV operational aspects in future works, including route planning, flight procedure design, airspace capacity assessments, and establishment of separation minima.