In the design of tall reinforced concrete (R/C) buildings, the serviceability stiffness criteria in terms of maximum lateral displacement and inter-story drift must be satisfied to prevent large second-order P-delta effects. To accurately assess the lateral deflection and stiffness of tall R/C structures, cracked members in these structures need to be identified and their effective member flexural stiffness determined. In addition, the implementation of the geometric nonlinearity in the analysis can be significant for an accurate prediction of lateral deflection of the structure, particularly in the case of tall R/C building under lateral loading. It can therefore be important to consider the cracking effect together with the geometric nonlinearity in the analysis in order to obtain more accurate results. In the present study, a computer program based on the iterative procedure has been developed for the three dimensional analysis of reinforced concrete frames with cracked beam and column elements. Probability-based effective stiffness model is used for the effective flexural stiffness of a cracked member. In the analysis, the geometric nonlinearity due to the interaction of axial force and bending moment and the displacements of joints are also taken into account. The analytical procedure has been demonstrated through the application of R/C frame examples in which its accuracy and efficiency in comparison with experimental and other analytical results are verified. The effectiveness of the analytical procedure is also illustrated through a practical four story R/C frame example. The iterative procedure provides equally good and consistent prediction of lateral deflection and effective flexural member stiffness. The proposed analytical procedure is efficient from the viewpoints of computational effort and convergence rate.