I think once Matt's list is close to complete, there's some discussion that will occur, but right now it's just a "tease."
As far as tools v teaching, I think there are physical attributes that are innate, size, strength, speed, that can be improved somewhat through training but are primarily genetic.
However, other attributes also fall into that category, body control is harder to observe, but you see it in every sport, in baseball it's reflected by a compact swing, repeatable mechanics and command/control. Again, it can be improved with training, but it's also an innate quality that varies from prospect to prospect.
Even "baseball IQ" is primarily innate, some guys can process spatial information better than others, sure you can study film on tendencies, but some SSs with the same athletic skills as others make more plays because they react quicker and take better angles, same with OFs.
Vision is also innate, you might teach a hitter how to better process what he sees, but I doubt you can teach a hitter to pick up the spin on the ball if he doesn't have that innate talent.
The difference is that some skills are obvious, power, speed, arm strength, velocity, others are more subtle, like being able to recognize a breaking ball and have a sense where it will be when it crosses the plate, or consistently put the proper spin on a breaking ball and not throw hanging sliders. More subtle skills tend to be inferred from results, so it's harder to determine how much is innate and how much is learned, whereas once a prospect is physically mature, velocity is easily measured (though I'd say control of the movement of a 2 and 4 seam FB is more subtle than just how hard you throw it).
But even something like power is a combination of brute strength and swing technique, some hitters learn to shift their weight properly or "load their swing" and increase their power. Some pitchers learn to rework their mechanics and add velocity (remember Diekman?).
I think where this plays into prospect evaluation is similar to physical projection, trying to project how much of the player's talent is innate and how much could be modified through a good training program/coaching better mechanics/increasing their functional baseball IQ. And that's a tough call, that combines genetic physical traits, background (a lot of LA players are malnourished compared to American 16 year olds), personality (work ethic, intelligence, coachability), and some unique factors. Or put it this way, why did everyone in baseball underestimate Trout's talent?