10 Times Janeway Was The Best Captain In Star Trek
3. She Listens To Her First Officer
Janeway and Chakotay were an excellent duo throughout the seven years that it took Voyager to get back home. They were each a foil for each other, while also becoming close as friends. There was a hint at a romance, yet the writers (thankfully) decided that wasn't in their best interests - and the show was stronger for it.
However, that doesn't mean that they didn't butt heads from time to time, sometimes in extreme ways. In Equinox, they nearly come to actual blows, with Janeway conceding at the end that Chakotay may have had cause to stage a mutiny - yet even in that situation, they knew when to draw the line.
In Scorpion part 2, Janeway has forged an alliance with the Borg, something that Chakotay is vehemently against. However, as first officer, he does his duty. When Janeway is wounded and incapacitated however, he makes the decision to decompress the deck that the Borg are on, though not before Seven of Nine manages to bring them into Fluidic Space.
When Janeway wakes, she is incredibly angry - but still very receptive to Chakotay. She feigns relieving him of duty, keeping him instead as a backup plan for Seven's (inevitable) betrayal.
They may not always agree on everything, but Janeway knew that she had a strong officer in Chakotay, trusting his judgement and advice.