Locked-in syndrome in basilar artery thrombosis is a classic example of dissociation between preserved consciousness and complete deefferentation as total myoplegia with preserved vertical eye movement. Something similar is observed in post-comatose patients, described under the name “functional locked-in syndrome”, and is also a clinical reflection of the phenomenon of cognitive-motor dissociation (CMD). Diagnosis of this condition in a patient with chronic consciousness disorders indicates that there may be a cognitive imprint, which gives a chance for the maximum realization of the rehabilitation potential of latent consciousness as an exit to the clinical level of small consciousness or creation of a brain-interface. In any case, this patient should be given an extended rehabilitation program.Objective: to search for the optimal set of clinical and instrumental diagnostic methods, allowing the identification of CMD in patients with chronic consciousness disorder.Patients and methods. The 2016–2018 prospective single-center study enrolled patients with unresponsive wakefulness syndrome (UWS) who had received a treatment cycle at the Clinical Brain Institute (Yekaterinburg). The study included 39 patients (22 men, 17 women) aged 19 to 71 years who had sustained various cerebral injuries (traumatic, hypoxic, and acute vascular disease-associated) in different periods (from 32 to 2431 days) before being included in the study. All the patients underwent 5-fold clinical assessments according to the Coma Recovery ScaleRevised (CRS-R) and navigated transcranial magnetic stimulation (nTMS) in order to determine the time course of changes in the activity of the cortical motor centers at the time of presentation of verbal paradigms. Registration of the changes was assessed as the presence of a cognitive imprint and served as a criterion for diagnosing CMD as a positive predictor for the outcome of UWS. The outcome of the state was analyzed using the Glasgow Outcome Scale (GOS) at 180 days.Results and discussion. Positive changes (GOS >3) were noted in 10 (66%) patients with established CMD; the patients who had not diagnosed as having the cognitive potential showed a further increase in the level of cognition in 3 (12.5%) cases. Whether the identified sign could be used in the comprehensive prediction of chronic consciousness disorder was discussed.Conclusion. The use of TMS in diagnosing the phenomenon of CMD optimizes the routing of patients, for whom intensive rehabilitation can contribute to more favorable long-term outcomes.