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In the holographic AdS/QCD approach, the confinement/deconfinement transition is associated with the Hawking-Page transition of a thermal anti-de Sitter (AdS) space to an AdS black hole. In the case of the hard wall model, the thermal transition takes place in the planar AdS thanks to the introduction of an infrared cut-off in the geometry. The corresponding thermodynamic entropy of the $SU(N) $ gauge theory jumps from proportional to $N^0$ in the confined hadronic phase to proportional to $N^2$ in the plasma phase, corresponding to the presence of the color degrees of freedom. The Hawking-Page transition is understood by considering a semiclassical picture of a system consisting of two different geometries that are asymptotically AdS. One is the AdS black hole and the other the thermal AdS space. The relative stability between these competing geometries varies with the temperature. So, the transition is essentially a problem of stability. An interesting tool to study stability of physical systems is the configuration entropy (CE), inspired in the Shannon informational entropy. In this work we investigate the CE for the case of the AdS/QCD hard wall model at finite temperature. We propose a regularized form for the energy densities of the black hole (BH) and of the thermal AdS geometries that makes it possible to calculate their CEs as a function of the temperature. We find a relation between stability and the value of the CE for the system of asymptotically AdS geometries. Remarkably, it is found that the CE is proportional to $\log(T)$, where $T$ is the temperature. This result makes it possible to write out a simple relation between the configuration and the thermodynamic entropies.