The purpose of this study was twofold: first to document the gender differences in Moderate to Vigorous Physical Activity (MVPA) according to two epoch systems (5 vs. 60 s) in preschoolers, and, second to document the differences in physical activity (PA) patterns according to two different epoch choices. The sample comprised 59 preschoolers (31 girls) aged 2–5 years old. PA was assessed by accelerometer during school hours. The time spent in MVPA was significantly higher (p < .001) when a 5-s epoch was considered compared to the 60-s epoch, regardless gender. Further, it was found a difference of ~17 min difference between the 2 epoch systems for MVPA. Different epoch times might affect the time spent in MVPA among preschool children.