Porges’ polyvagal theory (1991) proposes that the activity of the vagal nerve modulates moment‐by‐moment changes in adaptive behavior during stress. However, most work, including research with infants, has only examined vagal changes at low temporal resolutions, averaging 30+ s across phases of structured stressor paradigms. Thus, the true timescale of vagal regulation—and the extent to which it can be observed during unprompted crying—is unknown. The current study utilized a recently validated method to calculate respiratory sinus arrhythmia (RSA) dynamically at a high resolution of 5 Hz (updated every 200 ms) in a home‐based infant study. Using an event‐related analysis, we calculated the relative change in RSA around the onset of naturally occurring unprompted instances of n = 41 infants’ 180 crying events. As predicted, RSA significantly decreased after the onset of crying compared to non‐crying chance changes in RSA. Decreasing trends in RSA were driven by infants with higher pre‐cry RSA values, infants rated lower in Negative Affectivity, and those rated both high and low in Orienting by their mothers. Our results display the timescale of RSA in spontaneous and naturalistic episodes of infant crying and that these dynamic RSA patterns are aligned with real‐time levels of RSA and also caregiver‐reported temperament.