Yes, this is my main complaint with this episode and SNW wrt Spock in general. I sort of get the idea that he's going on an arc from "Smiling Spock" in the cage to TOS, but it'll be a real weird kind of change over to TOS Spock IMHO from this. And like you said, how does he become the Spock in the Galileo Seven? At this point it sort of seems like he'd need a mind wipe or something...
I certainly would have thought something like him saying "It is illogical to require "a thing" to carry out lawful orders lieutenant." and if pressed again something like "We do not have time to waste - carry out your orders".
This "everyone has a thing" is stupid, and to do it in multiple series?
And Spock's whole thing to continue to wait / worry about M'Benga and Chapel after saying their choice was logical didn't fit for me, nor did his reaction to Chapel. How does he go from that to TOS "ignoring/not noticing" Chapel's thing for him, and lack of interest in her?