Monitoring the hydraulic properties within subsurface fractures is vitally important in the contexts of geoengineering developments and earthquakes. Geophysical observations are promising tools for remote determination of subsurface hydraulic properties; however, quantitative interpretations are hampered by the paucity of relevant geophysical data for fractured rock masses. This study explored simultaneous changes in hydraulic and geophysical properties of natural rock fractures with increasing normal stress and correlated these property changes through coupling experiments and digital fracture simulations. We show that electrical resistivity is linked with permeability and flow area regardless of fracture roughness, whereas elastic wave velocity is roughness dependent. We also are able to categorize fracture flow patterns as aperture-dependent, aperture-independent, or disconnected flows, with transitions at specific stress levels. Elastic wave velocity offers potential for detecting the transition between aperture-dependent flow and aperture-independent flow, and resistivity is sensitive to detect the connection/disconnection of the fracture flow.