Karl Birjukov has been writing recently on the need to the sciences to be revised, in order to conform better with theism. Here are links to four of his articles.
Most of what Karl writes is of interest, and directly relevant to our task of finding a new account of our universe that includes what is true from theism as well as from modern science. We both recognize that there are many deficiencies with how science is normally taken to understand the world, and how its common understanding appears to block connections to spiritual or theistic matters.
Karl's focus is on one particular deficiency: on how, since Kant, the natural world has been taken to consist of objects governed by the 'law of inertia'. By this, he appears to mean that all things are inert objects acted on by external forces. He says that "it is necessary in the first place to strip out the inertial view, and only then to consider the situation anew." Birjukov examines the details of Einstein's relativity theory in its foundations, trying to find how concepts of mass and inertia may possibly be reworked in that context.
I reply that it is true that the standard concept of objects (since Kant especially) has been to take them as inert and lifeless: with inertia, and with no internal source of activity. However, when I examine modern quantum field theories that try to predict the masses of subatomic particles, I find that 'inertia' by itself is hardly used. Rather, the masses of objects are constructed dynamically from the rapid internal exchanges of particles that have themselves no rest mass, but only energy. These internal particles are photons in the case of electromagnetic interactions, and gluons in the case of interactions between quarks to make up nucleons.
What is needed, therefore, is a theory of science that takes into account how in these ways mass and inertia are not given as 'inert' qualities, but as the result of interior and active processes. I have outline a general framework for this in my paper Derivative Dispositions and Multiple Generative Levels.
My general experience of the development of ideas in the sciences is that the defects of old ideas are only clearly admitted when there is a new theory proposed that at least begins to replace the previous explanations. I differ from Birjukov, therefore, in his insistence on removing the old ideas that might be incorrect, but before there are new theories to replace them. He recognizes this in part, as he tries to formulate a new basis for relativity theory, but that is only the very smallest part of the problem. In fact, I argue that new theories of science can only be properly compatible with theism when they are consistently and diligently derived from theism. This means that our work should begin at the beginning (with Theos) rather than in nature (with Physis), as in some kind of 'theistic science', as only then can we constructed a unified cosmology.