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Earth system models predict a zonal dipole of precipitation change over tropical South America, with decreases over the Amazon and increases over the Andes. Much of this has been attributed to the physiological response of the rainforest to elevated CO2, which describes a basin-wide reduction in stomatal conductance and transpiration. While robust in Earth system model experiments, details of the underlying atmospheric mechanism—specifically how it evolves in the context of land-atmosphere interaction and the diurnal cycle—are unresolved. We investigate this using idealized model simulations and find that within 24 hours of a CO2 increase, changes occur over the Amazon that engender synoptic timescale feedbacks. Decreased evapotranspiration from the rainforest throttles near-surface moisture, inducing a drier, warmer, and deeper boundary layer. Above this, enhanced turbulent diffusivity increases vapor in the lower free troposphere. Together, these processes reduce convective activity and cause immediate decreases in Amazon rainfall. Over the synoptic timescale, these changes leave behind lower tropospheric moisture, which is advected westward by the background jet and increases Andean precipitation. This produces a dipole of precipitation change consistent across global and regional models as well as parameterized and resolved convection, though details are sensitive to model topography and boundary layer formulation. The mechanism reported here stresses the importance of fast timescale processes affecting stability over a period of hours that can influence longer-term vegetation-climate interactions. These results help clarify the Amazons physiological response to rising CO2 and provide insight into possible causes of historical model biases and end-of-century uncertainty in this region.