The contemporary scientific and technological progress builds on the accomplishments of classical mechanics from the 19th century when the so-called ‘European scientific method and values’ were accepted practically by the whole educated world. Most scientific results and conclusions were reached based on the causal ontological approach proposed in principle already by Plato’s Socrates and developed further by Aristotle. Despite the late-modern paradigm shift in science (Galilei, Newton, etc.), the topicality of the ontological approach proposed by Aristotle (II. Analytics) remains. On the other hand, 19th and 20th century philosophers, mainly positivists such as Mach and Avenarius but also Schlick and Carnap, attempted to change this approach to unify scientific knowledge in accordance with an ideological, i.e. positivist outlook on reality. The authors place a special emphasis on the contribution of Rudolf Carnap and his interaction with Martin Heidegger. Three very different theories are applied to physical reality in the present: classical mechanics in the standard macroscopic realm, Copenhagen quantum mechanics in the microscopic realm, and special theory of reality in both realms in the case of systems consisting of objects having higher velocity values. Any explanation or description of transitions between different realms and theories had not been provided until now. Our paper describes the corresponding evolution in the modern period and identifies the underlying false philosophical assumptions and statements existing in today’s scientific systems. We will then demonstrate that one common theory for all realms of reality may exist; one that will be based fully on Hamilton equations (only the law of force of Newton is to be generalized). Only time change of particle impulse (not directly acceleration) is to be determined by a corresponding force. All necessary characteristics of physical reality may be derived in such a case. Direct correlations of such physical approach to philosophy (ontology) will be drawn.