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Abstract Despite routine detection of coseismic acoustic‐gravity waves (AGWs) in Global Navigation Satellite System (GNSS) total electron content (TEC) observations, models of the earthquake‐atmosphere‐ionosphere dynamics, essential for validating data‐driven studies, remain limited. We present the results of three‐dimensional numerical simulations encompassing the entire coupling from Earth's interior to the ionosphere during the 7.8 2016 Kaikoura earthquake. Incorporating the impact of data/model uncertainties in estimating the ionospheric state, the results show a good agreement between observed and simulated slant TEC (sTEC) signals, assessed through a set of metrics. The signals exhibit intricate waveforms, resulting from the integrated nature of TEC and phase cancellation effects, emphasizing the significance of direct signal comparisons along realistic line‐of‐sight paths. By comparing simulation results initialized with kinematic and dynamic source models, the study demonstrates the quantifiable sensitivity of sTEC to AGW source specifications, pointing to their utility in the analysis of coupled dynamics.