Optical motion capture systems are state-of-the-art in motion acquisition, however as any measurement systems they are not error free -- noise is their intrinsic feature. The works so far mostly employ simple noise model, expressing the uncertainty as a simple variance. In the work we prove the existence of several types of noise and demonstrate how to quantify them using Allan variance. For the automated readout of the noise coefficients we solve the multidimensional regression problem using sophisticated metaheuristics in exploration-exploitation scheme. Besides classic types of noise we identified the presence of the correlated noises and periodic distortion in our facility. We had also opportunity to observe the influence of camera failure to the overall performance.