Recently, nanofibre scaffolds have been used in prosthesis such as blood vessels, ligaments and skin. The optimum nanofibre distribution in the scaffold leads to uniform spreading in the tissue structure, regularity and smoothness on the tissue surface and in suitable tensile properties of prosthesis. This study presents a novel optimum model of nanofibre distribution in the scaffold structure by using the genetic algorithm method. The optimised model was considered in nanofibre scaffold samples prepared from polycaprolactone. Surface characteristics and tensile tests were performed to tissue samples. All of the experimental results strongly confirmed the results of optimised structural model of nanofibre scaffolds.