For the present, it is difficult to obtain thermodynamic data for binary liquid alloys by experimental measurements. In this study, the molecular dynamics processes of the binary liquid alloys Pb50-Sn50, Al50-Sn50, and In50-Zn50 were simulated by using the ab initio molecular dynamics (AIMD) principle, and their partial radial distribution functions (PRDF) were obtained at different simulation steps. Combined with the relevant binary parameters of the Molecular Interaction Volume Model (MIVM), Regular Solution Model (RSM), Wilson Model, and Non-Random Two-Liquid (NRTL) models. The integral terms containing the PRDF were computed using the graphical integration method to obtain the parameters of these models, thus estimating their activity and molar excess Gibbs energy. The total average relative deviations (ARD) of the activity and molar excess Gibbs energy estimates of the four models for the binary liquid alloys Pb50-Sn50, Al50-Sn50, and In50-Zn50 at full concentration when the PRDF is obtained by the symmetry method are MIVM: 21.59% and 59.35%; RSM: 21.63% and 60.27%; Wilson: 24.27% and 86.7%; NRTL: 23.9% and 83.24%. When the PRDF is obtained by the asymmetric method: MIVM: 22.86% and 68.08%; RSM: 32.84% and 68.66%; Wilson: 25.14% and 82.75%; NRTL: 24.49% and 85.74%. This indicates that the estimation performance of the MIVM model is superior to the other three models, and the symmetric method performs better than the asymmetric method. The present study also derives and verifies the feasibility of Sommer’s equation for estimating the molar excess Gibbs energy and activity of binary liquid alloy systems in the Miedema model by using different equations of enthalpy of mixing versus excess entropy given by Tanaka, Ding, and Sommer. The total ARD of Tanaka, Ding, and Sommer’s relational equations in the Miedema model for estimating the activities and molar excess Gibbs energies of the binary liquid alloys Pb-Sn, Al-Sn, and In-Zn are 3.07% and 8.92%, 6.09% and 17.1%, and 4.1% and 14.77%. The results indicate that the estimation performance of the Miedema model is superior to the other four models.