I could see that too, perhaps a plot about a drug that forces either self-substantiation or death.

I think it’s about drastically defying what the system predicted you could do, be it outrunning your own perceived physical limitations, or just as with the jump skill, fully committing to the unreal nature of the world like the kid.

We got a glimpse at how the architect governed the Matrix, and we can clearly see he’s obsessed with pattern prediction and it’s role on system stability, "as you adequately put, the problem is choice"

My pet theory about self-substantiation is that it comes out of a user causing an error of extreme, logic defying, committed choice that could bring down portions of the entire system because everything and everyone is interconnected, leading to emergency expulsion.