The military staff is extremely susceptible to the development of stress-associated disorders. Problems identified in time, high-quality diagnostics are an opportunity to accord assistance to the soldier quickly and effectively and return him to the service. We investigated the relationship between the presence of post-traumatic stress disorders (PTSD) and changes in the eye movements. The structure and composition of the software-hardware complex to identify the objective signs of PTSD were developed and then formed. In the study of patients with diagnosed PTSD and healthy volunteers, it was found that PTSD leads to a change in eye movement, reduced accommodation functions and convergence, change in the pupils diameters, a decrease in the acuity of stereo vision. Such results open up the opportunities for an early objective diagnosis of the disease, which makes it possible to provide effectively the necessary assistance to our servicemen in time.