Let's go back to the first act, in the Enterprise's transporter room:
KIRK: Twenty? I can't run a starship with twenty crew!
WESLEY: The M-5 can.
KIRK: And what am I supposed to do?
WESLEY: You've got a great job, Jim. All you have to do is sit back and let the machine do the work.
Maybe that's exactly what Wesley thought Kirk was doing, just sitting back and watching... Wesley would have then thought "Why the hell doesn't he hit manual override and turn that damn computer off!?!?"