Vegapunk having his own technology turned against his is really fitting for this arc, I think. I believe Vegapunk wants the best, but, still, people who make clone children to turn into lethal soldiers are just fucked up. He needs to get called out for that shit, and Oda might be setting that up.
This is where Franky fits in IMO (
@Cutty Jewboy ). Franky and Tom made ships, that could be used for evil. Vegapunk fucked up by making humans that could have their free will controlled by others, to me.
Franky's ships, and Pluton, were ships that could be used for good or evil. Vegapunk made living being whose will was taken away from them, and that's super fucked up to me.