Yes, I use the towels under the iron, and it appears to me to leave a thin layer of wax. At least, some will come off with a brass brush like in your posted video. So I guess I normally do leave a very thin layer wax on that gets skied off! I'll grab a very soft wooden shim from the home improvement section of my man cave and use that to scrap wax off the edges. I also try to keep the iron temperature down during waxing so I don't destabilize the base. I think I heard that from Jacques. I sometimes get a little black in the molten wax, not all the time, so I assumed it was dirt or abraded base material. One set of my skis have mostly black bases with short sections of clear ptex near the tip, where I can see the build up and removal of a little dirt.
Yes, there has been quite a bit of debate about wax science, mostly over on Epic, but I don't claim to be an expert in that specific field. However, since I got my PhD in organic chemistry, I've worked with polymer and material scientist and engineers and have learned a lot from them in 30 years. Small molecules, like wax molecules, can easily diffuse through semi-crystalline polymers like the ultra-high molecular polyethylene used to manufacture ptex bases, and Spectra and Dynemma fibers used in bullet-proof vests. Heat certainly helps, as I saw a few weeks ago on a polymer film project I'm currently working on. Synthetic textile fibers are dyed by dye molecules diffusing into their amorphous domains; this is not rocket science. I didn't look it up, but ptex is probably about 40 % crystalline domains, which are not permeable, and 60 % amorphous domains; together these are commonly referred to as "microstructure". Some polymers can achieve much higher percent crystallinity upon orientation, like the polyethylene in Spectra fiber. Crystallization of the polyethylene creates strength, which increases with the molecular weight of the polyethylene. Crystallization also creates more free volume in the amorphous domains left behind and wax molecules can permeate those domains to fill the free volume. Since wax is chemically similar to ptex bases in structure (aliphatic chains, -CH2-CH2-CH2-CH2-...), there is a natural affinity for each other. It takes time for wax molecules to diffuse deep into the base, thus the need for repetitive cycles, heat, and softer prep waxes with lower molecular weights, and apparently they don't go as deep as we would like to think based on their loss after base grinds. I would hazard a guess that these small wax molecules help to open up the microstructure in the base enabling the higher molecular weight hard waxes to diffuse more easily into the base.
Today is a Safety Day at my company, and we are not supposed to do real work, so apparently I have too much time on my hands now that its the end of the day...