Interfacial structural and chemical evolution underpins safety, energy density, and lifetime in batteries and other electrochemical systems. During lithium electrodeposition, local nonequilibrium conditions can arise that promote heterogeneous lithium morphologies but are challenging to directly study, particularly at the nanoscale. Here we map chemical microenvironments at the active copper/electrolyte interface during lithium electrodeposition, presenting operando freezing cryogenic electron microscopy (cryo-EM), a new method, to lock in structures arising in coin cells. We find local ion depletion is correlated with lithium whiskers but not planar lithium, and we hypothesize that depletion stems from root-growing whiskers consuming ions at the growth interface while also restricting ion transport through local electrolyte. This can allow dangerous lithium morphologies to propagate, even in concentrated electrolytes, as ion depletion favors dendritic growth. Operando freezing cryo-EM thus reveals local microenvironments at active electrochemical interfaces to enable direct investigation of site-specific, nonequilibrium conditions that arise during operation of energy devices.