Two random observations [spoilers]
1. In the kitchen at Chinatown, after Zuben gets scared and runs off after trying to scald you with hot... food, you chase him and he jumps down from the ceiling to kill you. You put away your gun; he gets confused but is willing to talk. McCoy then admits he's a "rep detect," and then Zuben's like "REP DETECT?!" and runs away. Apparently Zuben is one of the less intelligent models if he couldn't guess that some guy coming into his kitchen to question him about a fellow replicant (or especially requesting to VK him) isn't a blade runner, particularly since he was just about to kill him.
2. One of the DNA files you can get is at the twins' lab. Now I can understand if you decide to be a rep sympathizer and go the Lucy or Dektora routes while getting as much DNA as possible to possibly lengthen your lifespans, but if you go to the moonbus with Clovis and get every DNA except the twins, I seem to recall Clovis being a tad more optimistic if you had gotten the twins' DNA too. Considering the twins are on the moonbus (at the top, in the cockpit) then this means they forgot their whole mission as replicants trying to survive, not to mention something which is the constant subject of their research.