Renaissancde Man Trivia

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Chakotay says Janeway has included him in all major decisions in the past seven years. Actually, he was left out of the loop in season two during the effort that uncovered Michael Jonas as a traitor.
   
The aliens beam the warp core into their cargo hold, but tow the Delta Flyer with a tractor beam. Do they not have a shuttle bay? For that matter, why can't they beam the Flyer into the cargo hold? The warp core is bigger. Were they out of room? Luckily for Voyager they keep the Flyer in space, allowing Paris to recover it.