Hmmm, that’s fundamentally different from my understanding of the nature of Trinity’s (as well as Neo’s, Morpheus’ and the others’) residual selves. I thought that it was still their human selves and not a computer copy that inhabited the Matrix. But then again, your interpretation might be correct since i noticed the big difference in the ‘Matrix’ and ‘real world’ fight scenes between Neo and Agent Smith. The former was kung-fu style while the latter was more of a clumsy brawl.
On the Stanford achievement, i think the challenge is not to pass on expertise to other computers which is relatively straightforward. The challenge is to pass expertise from computer into humans which means translating machine encoding (made up of 1’s and 0’s) into the human brain’s neural patterns.