In complex geochemical aqueous systems, chemical species are conceptually distinct but empirically related thanks to a large number of interactions taking place at different spatial and/or temporal scales. In this condition, common elements are shared, multiplicative interactions arise, and feedback mechanisms may be able to maintain the system far from the thermodynamical equilibrium, bearing wide fluctuations. Chemical species can have alternative stable states and transitions among them that could produce important consequences for the stability and the resilience of the solutions, also forced by climate changes and with impact on human health. Under the Compositional Data Analysis (CoDA) methodology, it is possible to appreciate the power of some tools able to take a look at the whole instead of the constituting parts, enhancing the understanding of the nature of mutual interactions. In this research work, the role of the perturbation operator governing addition/subtraction in the simplex geometry is explored as a way to trace compositional changes and investigate the system dynamics. The results of our approach on the chemistry of the Arno River waters (Central Italy) highlight the possibility to discover the resilience of chemical species under the pressure of the environmental drivers affecting the catchment. Geochemical mobility (e.g., ionic potential, ionic strength) can be associated with new tools that provide information on either the resistance to change, predisposing the system to critical shifts, or its adaptive capacity, which instead favors gradual changes. This information appears to be fundamental since river water chemistry enables to decipher processes at the boundaries among lithosphere, biosphere, hydrosphere, and atmosphere, all key reservoirs involved in the dynamics of the Earth. This knowledge will be particularly relevant if the pressure of the climatic changes on our planet will continue to increase.