Dear Vladimir;
I enjoyed reading your essay. You went straight to the point. The root of the crisis is the lack of recognition in the physical sciences of the need to have an ontological foundation for all theories and fundamental concepts and axioms on which those theories are founded. As you said: To overcome the crisis of fundamentality means to achieve "ontological bottom" and build its structure.
I concur with you when you say "One of the main causes of the modern crisis in Fundamental Science is the domination of epistemic fundamentality and a disparaging attitude toward metaphysics, ontology". This is part of the critique I make in my essay.
I fully agree with your conclusion
"... that the basic physical theories do not have ontological fundamentality. They are not built on a strong ontological basis and are phenomenological theories without ontological justification. The foundation on which they are built is not solid, their ontological structure (ontological basis) is not clarified. The ontological basis must be the same for all fundamental theories for all levels of the Universum existence".
Perhaps without realizing it, physicists are trapped in a neopositivism. And "It is necessary to overcome fenomenologizm in the systemic approach that prevails today in modern science".
The solution of the problems of modern Fundamental Physics requires the creation of a deeper ontology that encompasses all levels of the Universe as a holistic generating process. This solution is what I try to introduce in my essay. There I start by establishing the general concept of "Fundamental". Then I summarize an epistemological critique of the practice of theoretical science, where it is demonstrated the inadequacy of the ways science constructs the fundamental concepts for studying the fine grain of reality. Afterward I propose an expansion of the scope of physical science to include the aspects of reality that cannot be observed directly or indirectly. Then I discusses the concepts of SPACE, DISTANCE,TIME, INERTIA, MASS AND ELECTRIC CHARGE, and develop new concepts for each of these scientific parameters; redefining them in ways that allows the determination of whether or not they could be categorized as Fundamental