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Originally Posted by Guernsey

Good Point. Still, Archer seems to enjoy dissecting Shirou a lot.

You mean verbally? If so that's due to

Spoiler for UBW spoiler:

the fact that he is in fact Shirou so he's basically making fun of himself, you know those arguments you have with yourself or those little voices in the back of your head or those times where you say god was I an idiot 3 years ago, that's basically what Archer's doing, if you mean physically cutting him up then that's more because he hates himself that much, and he rarely tries quite so hard at killing anyone else but himself