A systematic study on the physicochemical properties of two protic ionic liquids (ILs) {2-hydroxyethylammonium acetate ([Mea][Ac]) and 2-hydroxyethylammonium hexanoate ([Mea][Hex])} and their mixtures with water was performed. The density and viscosity were assessed across the entire range of aqueous dilutions between 278 and 393 K. The conductivities, water activities, and surface tension of the binary systems in water were also assessed, and the influence of anions was evaluated. Differential scanning calorimetry (DSC), Fourier transform infrared (FTIR), and 1H and 13C nuclear magnetic resonance (NMR) techniques were used to study the systems at different IL compositions. The excess molar volumes (VE) and thermal expansion coefficients were calculated, with negative values for VE across the entire concentration range. Density data were fitted to a polynomial for density prediction, function of temperature, and concentration, with the average deviation percentage not exceeding 0.63%. The viscosities of the binary systems were studied considering six different models and were better predicted by the model of Herráez et al. at IL concentrations higher than 0.25 mole fraction. The systems containing [Hex]- exhibited higher water activities and lower conductivity and surface tension. All studied systems exhibited a glass transition event, which varied according to the IL composition. The FTIR and NMR analysis confirmed the distinct molecular arrangement of [Mea][Ac] and [Mea][Hex] systems.