The objective of this study was to evaluate the reliability of Modified Vector Coding in assessing the coordination of the lower limbs and pelvis during running and to determine the Minimal Detectable Change (MDC). Twenty-five healthy runners participated in a biomechanical analysis of treadmill running using a motion capture system. Modified vector coding was applied to assess the three-dimensional coordination among various pelvis and lower limb segmental couplings. Reliability was assessed using the Intraclass Correlation Coefficient (ICC), Standard Error of Measurement (SEM), MDC, and Bland-Altman analysis to ascertain measurement consistency, agreement, and the smallest clinically meaningful change that exceeds measurement error. The test–retest reliability for 33 of 42 segmental couplings analyzed was good to excellent, with ICC values ranging from 0.613 to 0.928 (p <0.05), which substantiates the robustness of modified vector coding in running biomechanics. However, nine couplings, particularly femur-tibia in the sagittal plane during midstance and foot in the frontal plane-tibia in the transverse plane during late stance, exhibited poor to moderate reliability. These findings underscore the need for cautious interpretation due to significant proportional bias (p <0.05). SEM and MDC provided insights into the precision and minimal clinically significant changes for each coupling. The findings confirm the reliability of modified vector coding for biomechanical analysis in running, with most couplings demonstrating consistent high reliability. Nevertheless, specific couplings should be interpreted with caution due to potential measurement errors. The application of MDC highlights the precision of modified vector coding in biomechanical analyses and emphasizes the importance of careful interpretation to improve clinical and research outcomes in running-related injuries.