The hypotheses that the plasticity or flexibility of cognitive activity substantially depends on the ability to replace the previous cognitive sets by new sets that are more appropriate to new conditions is substantiated. Working memory overload results in a decrease in set-shifting and, as a consequence, increased erroneous stimuli recognition. The plasticity of set-shifting is changed depending on the context of cognitive activity. On the basis of the data from the analysis of the coherence function and induced synchronization/desynchronization responses of potentials in the θ (4–7 Hz) and low-frequency α (8–10 Hz) bands, the roles of the tonic and phasic forms of activity of the cortico-hippocampal and fronto-thalamic functional systems of cerebral integration in changes of plasticity of cognitive functions are discussed.