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Abstract Biological processes require concerted function of many channels embedded in the cell membrane. While single solid‐state nanopores are already designed to mimic properties of individual biological channels, it is not yet known how to connect the pores to achieve biomimetic ionic circuits with interacting components. To identify fundamental processes that control interactions between nanopores embedded in the same membrane, a model system of minimal arrays consisting of two and three nanopores in silicon nitride films is designed. The constituent nanopores have an opening diameter <10 nm, and the interpore spacing is tuned between 15 and 200 nm. The experimental and modeling results reveal that nanopores in an array interact with each other via overlapping depletion zones created by the process of concentration polarization. The interactions can be further controlled by salt concentration and voltage. These results showcase a possibility of tuning interactions between nanopores and transport properties of arrays by chemical modification of the pore walls. Arrays consisting of nanoporous ionic diodes feature depletion zones with higher concentrations, and lower current suppression than homogeneously charged pores. These experiments and modeling provide the first steps to leave the constraints of single nanopores and to design biomimetic ionic circuits.