In this paper, we propose a deviation model and consider the transmission property of Thue–Morse (TM) multilayers with deviations. It is found that at the central wavelength for very simple systems, the transmission coefficients (TCs) have nothing to do with the deviation of a machine, but when a multilayer system becomes more complex, one should use the most precise machine in order to make the system possess the designed value of TC. However, if superlattices become more complicated, one may choose a machine with a suitable relative error, but not the most accurate machine, to manufacture a perfect system. Additionally, after the number of layers exceeds some critical value, the very sophisticated optical superlattices could only be manufactured by very precise machines. The results would be useful for designing and manufacturing thin films of optical superlattices.