Functional brain networks reflect inherent inter-regional relationships that subserve behaviour and information processing. There is evidence that the correlations of regional brain function across individuals partly reflect functional connectivity. The current study focuses on region-to-region covariation of cerebral blood flow (CBF) across participants using arterial spin-labelled MRI. To investigate the stability of this CBF covariance mapping, we compare maps acquired within the same day but before and after a single exercise session. To refine our CBF covariance mapping methodology, we consider whether choice of anatomical atlas and use of partial volume correction impact the results of our between-session comparison.