Fluxes of carbon and water along a vertical profile within a canopy, particularly the associations between canopy and ecosystem levels, are not well studied. In this study, gas exchange along the vertical profile in a maize canopy was examined. The relationships between leaf- and ecosystem-level carbon and water fluxes were compared. The results from research conducted over two growing seasons showed that during vegetative growth, the top and middle leaf layers in the canopy contribute most to the carbon and water fluxes of the entire canopy. During the grain-filling stage, gas exchange processes were performed mostly in the middle leaves with and near the ears. Significant relationships were observed between the net ecosystem CO₂ exchange rate (NEE) plus soil respiration and the assumed canopy levels (A_canopy) and between evapotranspiration rates at the ecosystem (ET) and assumed canopy levels (E_canopy). This highlights the close associations between these parameters by integrating the leaf gas exchange rates measured in a conventional leaf cuvette and those at the ecosystem level via the eddy covariance technique. These results improve our understanding of how carbon assimilation varies vertically within a canopy, highlighting the critical role of ear leaves.