This paper shows the crucial elements and causes of the contemporary crisis of the natural sciences and humanities from the philosophical standpoint. The aim of the consideration is to show more precisely the most important aspects of the contemporary epochal context in which the issue of the relation of the natural, social sciences and humanities is actualized. The author discusses in his analysis the shifts in the understanding of the very concept of crisis which is reflected in the field of philosophy, social sciences and economics which was brought about by the series of epochal revolutionary changes in the natural sciences and humanities. The author offers in the conclusion several possible models of the solution of the present crisis