The clinico-epidemiological analysis and comparison of the data of a comprehensive study of suprasegmental vegetative regulation revealed an appreciable tension of the adaptation mechanisms in the acute period in 55 children with the meningeal form of tick-borne encephalitis (TE). Alterations in vegetative regulation in children suffering from TE were found to be coupled with impairment of the stem-hemispheric interrelations, reduction in the level of nonspecific activation, rise of convulsive preparedness of the brain. A correlation was established between alterations in the main parameters of variational cardiointervalography, character of brain bioelectric activity and the disease gravity. The data obtained can be employed as criteria for predicting the disease outcome and assessment of TE treatment in children.