Azoles are widely used as bioactive substances, herbicides, catalysts, corrosion inhibitors, polymeric compositors, organometallic ligands, and optical elements’ components. The interaction with water plays a crucial role in many applications of azoles. The objective of this study is to observe the molecular interaction and structural transformations of 1,2‐ and 1,3‐diazoles’, 1,2,3‐ and 1,2,4‐triazoles’ complexes with water molecules. We have selected the most valuable for application and theoretical interest azoles with different molecular structures, which have allowed us to consider the basic features of their aqueous complexes. We used the IR study method allowing to fix water intermediates in the solid phase. We have also employed the hybrid B3LYP functional DFT method with GD3BJ dispersion correction. At the cluster formation, the hydrogen atom transfer arises, providing a labile spatial arrangement of the water system. The formation of azoles’ complexes with a hydronium ion having relatively low binding energy allows the reshaping of the complexes’ structure at the hydrogen atom cluster‐to‐cluster transition. The complex formation is accompanied by the hydrogen atom transfer with the participation of both water and azole hydrogen atoms. This transfer provides the mobile spatial arrangement of clusters and hydrogen atom transition from donor to acceptor centers.