Rather than talking about an "underlying" order and thus elevating Mathematics to almost an ontological status, couldn't we just say that there is regularity, and it should obviously be possible to derive quantitative statements that reflect the fact there are stable "ratio" relationships. Occam's razor would seem to demand this view, but Platonic ideas are deeply rooted in Western culture, which are not empirically evident nor testable.
In trying to create a quantitative description of the experienced regularity, one has to measure one thing with respect to another, and in this sense nothing stands on its own as an absolute. The small is defined with respect to the large, the large is defined with respect to the small. Inevitably, one gets stuck in circular relationships, circular thinking and thus it will never be possible to arrive at some absolute knowledge, but only relative knowledge. Even counting is dependent on the distinctions we make. We might like to think that these distinctions are "just there", but actually we decide how to break up the whole into parts, and then the counting ensues. This, I think is felt as an unsatisfactory, incomplete knowledge, but it will never be possible to go further than this when "ratio" or the rational method is exclusively utilized.
It is because of the deeply rooted Platonic ideas that terms like "An imperfect understanding" is utilized. Imperfect with respect to what, imperfect in what way? Because it cannot be modelled mathematically in a complete and satisfactory way? The fact that the method known as "ratio" cannot offer an *absolute* description is entirely predictable. But if one is beholden to Platonism, then indeed it would seem "imperfect". But the Platonic view cannot be proven nor disproven... it is outside the method of ratio, and thus "Science"... those who hold to a Platonic view can do so only on faith... there is no place in Science for that, nor should there be.
Either we consider experience primary, or our descriptions as primary. In what sense would a mathematical description be more primary than experience? We can experience order/predictability, but also novelty/unpredictability. Why should this be seen as "Imperfect"? If the world were indeed reducible to mathematical relationships, then we would be describing a machine, not a world of living beings. Why should we expect to understand living beings and the biosphere in an exclusively mathematical way?
Platonism is the idea of an ontologically existing "mathematical realm", and this is related to the idea that the world could "self-assemble" because of these laws. But are these "laws" ontologically existent?
Paul Davies: "the very notion of physical law is a theological one in the first place, a fact that makes many scientists squirm. Isaac Newton first got the idea of absolute, universal, perfect, immutable laws from the Christian doctrine that God created the world and ordered it in a rational way. Christians envisage God as upholding the natural order from beyond the universe, while physicists think of their laws as inhabiting an abstract transcendent realm of perfect mathematical relationships."
http://www.nytimes.com/2007/11/24/opinion/24davies.html?_r=1&pagewanted=2
We should be prepared to say that ultimately, we don't know and won't know. But a more accurate statement would be that by utilizing the method of ratio (including thought itself) it will never be possible to "know". What other methods might we have up our sleeve? it must be realized however that any other method that we might have access to would not be quantitative, but instead qualitative, subjective. This will not replace the method of "ratio" as the type of knowledge gained would be different. It would be unthinkable knowledge that one could have, as mystics, yogis etc. say. To "know" in a intimate way, and not via mental descriptions (mathematical or otherwise) is possible, but this would be "knowing" rather than "knowledge". Of course, this does not replace "Science"... it is instead how we go further and finally scratch that itch to "know".
I agree with the spirit of Einstein's statement: "Subtle is the Lord, but He is not malicious."