Lieutenant Cary brings back a bag of apples to eat. Neelix needs to inform him that they are poisonous. A simple tricorder scan, which one would think would be mandatory when gathering food on an alien world, should have revealed the fruit to be poisonous.
Chakotay knew about an autonomic response analysis but didn't ask the Doctor to perform one on Seska. Instead of going through the elaborate setup for the trap they (Tuvok, Captain Janeway, and Commander Chakotay) put in place for Carey and Seska. The truthful resolution could've been found out by having the Doctor perform the ARA on Seska.