Elucidation that would be useful for the general public is very difficult or impossible to write in such a way that it wouldn't be extraneous distracting fluff for mathematicians. It would also make most papers dozens of times longer.
I'm not exaggerating here: I think you could probably state and prove the results from basic one-variable calculus (assuming as axioms some basic properties of the field of real numbers) in 10-20 pages in such a way that mathematicians would understand it, whereas beginner calculus textbooks are regularly over 1000 pages long. A hypothetical research mathematician who didn't know calculus would find the 20-page version way easier to understand than a slog through Stewart's 1300-page book.
What you want is undergraduate-level textbooks, not research papers. Good textbooks do contain all the stuff you want: examples, calculations, motivation, etc. I can recommend some if you are interested in a particular field.
http://www.math.vt.edu/people/embree/EF.html
Mark isn't dumbing down his material, but he is giving context for why it matters as well as graphical descriptions of how some of these ideas work. This is some of why I admire Mark's work. It's not just the technical results, but working to come up with better ways to relate the material.
I strongly suspect the person who originally started this discussion doesn't understand "we are interested in the spectral properties of quasicrystals, as modeled by discrete Schrödinger operators with aperiodic potentials", at all.
(I'm not saying that to be an elitist asshole -- I have an undergraduate degree in math and I don't understand most of that jargon.)
So Mark isn't doing what OP is asking for, and so he isn't a good example to show that what OP is asking for is possible or desirable for mathematicians.
Mathematics is not a subject reserved for a select set of chosen elite. It is a very necessary tool for almost every scientific endeavour. And this is a huge problem because people in those fields aren't just studying maths. Case in point, I'm a mechanical engineer. I have to study thermodynamics, materials, structural analysis, mechanics and on and on. In the midst of all this, I needed to learn advanced numerical methods, but was flummoxed because it was taught by a senior professor, to a class of mostly mathematicians, with an inordinately huge amount of effort placed towards proving things etc. and not much thought spared for us non-applied mathematicians.
This is something that I'm sensitive to and passionate about. Why I think Mark provides a good example for this is that an physicist or engineer may come looking for new techniques to analyze or solve the Schrödinger equation and the linked page provides context for why this may or may not be important. It also provides a visual description to help this explanation. For the technical results, this wasn't necessary. If Mark was just writing for mathematicians this isn't strictly necessary, but, to be clear, it helps someone like me dramatically.
What I'm interpreting from the overall thread, perhaps falsely, is that there's a sense of frustration that results are being made overly opaque. I agree with this and I don't think it's necessary.
I believe that there should probably some effort made to write tutorials on top of mathematical literature that explain how to use and apply at least the important results of mathematics to make it more accessible. But core literature should not be diluted for the purpose of making it more accessible.
I am 100% certain that had authors of a lot of papers that I have read included some examples and perhaps even calculation results, I would have understood and perhaps even been able to reason about some of their publications a whole lot better than I currently can.
Just the mere inclusion of a few examples makes a world of difference. The idea that X is clear to everyone and therefor we do not need to exemplify it for the reader is really back-breaking. Especially when you are not coming form a background that includes years of expertise within said domain!