We studied the effects of irradiation with protons at doses of 1 and 2 Gy in the Bragg Peak with an energy of 170 MeV on learning, recall of skills, and concentration of monoamines and their metabolites in the prefrontal cortex, nucleus accumbens, hypothalamus, striatum, and hippocampus of rats. In the T-maze, we performed discriminant learning with food reinforcement. Rats were trained for 5 days; from the second to fifth days, we found a considerable level of learning as compared to the first day. After training, on the sixth day, we found a trend to a decrease in the efficacy of test performance, which achieved significant differences on the seventh day of testing. Irradiation by protons at doses of 1 and 2 Gy in the Bragg peak did not influence the elaboration and recall of the passive avoidance reflex. This treatment causes a decrease in the concentration of catecholamines in the prefrontal cortex and 3-MT, a metabolite of dopamine, in the striatum. On the basis of disturbances of neurochemical indices in the corresponding brain structures, it is possible to logically explain the observed disturbances in behavior.