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In an effort to keep the most relevant ideas in one place, I reproduce most of the comment I made to Roberto Mangabeira Unger:
In your essay you state that "causal explanations make no sense outside time; causal connections can exist only in time." This I agree with. But then you say "...the moves in a mathematical or logical chain of argument do occur outside time." I'm less sure of that. A mathematical argument goes from step to step in sequential fashion which seems to incorporate the nature of time. As it does not matter when one steps through the sequence, it is time-independent. Much of physics (the physics covered by energy conservation) is time independent: dH / dt = 0. I do not see this as equivalent to the Platonic vision which does truly seem to proclaim a realm outside time and space.
In similar fashion I view logic as a property of reality that allows the physical structure of AND-gates and NOT-gates. The physical implementation of logic gates, combined combinatorially in space and typically sequenced in time, provide counters that generate the natural numbers and address Kronecker's maxim: "God made the integers, all the rest (of math) is the work of man."
Thus I see logic not as an 'outside' rule or 'law' but as the primary property of physical existence, supporting a single, self-consistent, unitary reality. Physical evolution in time yields math 'circuitry' at almost all levels, but perfected at the level of man. The logical operation of such circuits (in a computer, a cell, or in our brains) is independent of time in the sense that it does not typically matter when the logic sequence is triggered nor how long the steps take, but still, the physical existence and operation is embedded in time. Of course structural changes that 'endure' in time record information, and this too is typically time-independent, but is in no way 'outside of time'. Thus all the basis of math is derived from and 'evoked by' physical reality. This operation of the universe is not "subject to laws" outside time, but we can abstract relations (as I briefly show in my essay) that capture the operations reliably and thus appear to have the character of law, or "timeless truth" -- probably more accurately stated "time-independent truth."
Finally, I fully agree that "mathematics cannot replace physical insight." As an example I show in my essay how mathematics, based on faulty physical insight, led Bell to introduce a mystical 'non-locality' that almost banishes physical insight. And this is not the only 20th century mathematics that muddles physical thinking. I see the correction and clarification of these induced mystical concepts as the greatest need in today's physics. Then we might move forward. Most movement today impresses me as lateral or even backward.
You certainly could have been thinking of John Bell when you stated:
"The less we grasp the non-mathematical reasons for the application of mathematics ... the more enigmatic and disconcerting the application of mathematics will appear to be."
Bell did not grasp the underlying physics, and thus based his mathematical treatment on false assumptions. The correct application of mathematics to incorrect physics has certainly led us to enigmatic and disconcerting conclusions. In this sense mathematics is as you say, "a good servant but a bad master."
Edwin Eugene Klingman