Scanner:
If you don’t mind, I think I would like to stick to the field of natural and supernatural for clarification.
I am sorry that I am ill-equipped to explain it more clearly (FTR I am college educated too).
I cannot talk about it in terms of “natural” and “supernatural” because I have not learned it in those terms and I am reluctant to use them in ways that may not be technically correct.
The Church uses philosophical/metaphysical terms like “
substance” and “
accident”. I’m not sure I can even define these technically. But here is my best shot (and as always, submitting to the authority of the magisterium, I welcome correction if I am mistaken):
*Substance * is the *stuff * that something
is. This is a difficult term that I can make no better definition of.
*Accident * is what can be perceived. You are right that any scientific analysis would conclude that the Sacred Species are bread and wine – But that is because science, even the simplest (or most complex) science of our own senses, can only measure the accidents of a thing, not its substance.
This is why the confection of the Eucharist is called *transubstantiation * and not transformation. It is the substance – the stuff itself – which is changed, not the accidents – the form of the stuff.
WHAT FOLLOWS IS A VERY BAD ANALOGY
Water is stuff that has the substance of water. It can be in any of several states – Liquid water, solid ice, gaseous vapor – But the substance is still water. These are tran
formational changes.
(In reality, each of these states retains the accidents of water – The accidents of liquid water, solid water, or gaseous water respectively – That’s part of why this is a bad anaolgy)
I can’t make a similar analogy about a substantial change (tran
substantiation) because the only one I know of is the confection of the Eucharist. But follows is one about substantial identity, which makes my head hurt when I think about it too hard

)
You, Scanner, are a person, but you are not physically the same person you were yesterday, nor a year ago, nor ten years ago, nor when you were a child of 5. You have consumed resources, expelled wastes, stored and transformed some in the meantime, but there is no denying the material that constitutes you is different from that which constituted you in former times.
But have you ever stopped being
you? Of course not – In that sense you are *identical * to the you of former times – You are *substantially * the same, even if *accidentally * different.
(This is still a bad analogy, as you may well argue that you have also acquired many experiences over time, perhaps even that such acquisition has changed the substantial you. I’m not prepared to argue otherwise except to ask “When did you stop being that *you * to become the present
you? How did you know?”)