Summary
Kate Mulgrew said no to the idea that Admiral Kathryn Janeway became the Captain of the USS Enterprise inStar Trek: Prodigyseason 2. Now streaming on Netflix,Star Trek: Prodigyseason 2’s 20 brand-new episodes see Admiral Janeway lead the USS Voyager-A on a mission to rescue Captain Chakotay (Robert Beltran) from a dark alternate future timeline.Janeway in the center seat of the newest version ofStar Trek: Voyager’s eponymous starship is apropos, compared to the idea of Janeway taking over Admiral Jean-Luc Picard’s (Patrick Stewart) old job.
In an interview withIGN,Star Trek: Prodigyshowrunners Kevin and Dan Hageman discussed their process of deciding what direction to take Admiral Janeway and Captain Chakotay’s characters afterStar Trek: Voyager.Dan then recalledpresenting Kate Mulgrew with the idea that Janeway could take command of the Starship Enterprise, but Mulgrew was"not thrilled".Read Dan Hageman’s quote below:

There was a moment where we were playing with the idea that [the ship] could be the Enterprise instead. We [asked] Kate, ‘What do you think if you’re the new captain of the Enterprise,’ and she was not thrilled,” he laughs. “She’s like, ‘I’d rather it be the Voyager.’
Star Trek: Prodigy Season 2 Ending & Shocking Season 3 Set Up Explained
Star Trek: Prodigy season 2 brings the time travel saga of the USS Protostar full circle. Here’s what happened and what it all means for season 3.
Where Is The USS Enterprise-E In Star Trek: Prodigy Season 2?
Turning down the Enterprise was a smart move by Kate Mulgrew
Star Trek: Picardestablished what happens to the Sovereign Class USS Enterprise-E afterStar Trek: Nemesis- to a point. According toStar Trek: Picard’s backstory, Captain Picard accepted a promotion to Admiral and the mission to lead the United Federation of Planets' rescue of the Romulan people from their son going supernova.Worf (Michael Dorn) became Captain of the Enterprise, but at some point,something happened to the USS Enterprise-Ethat the Klingon contends, “Was not my fault!”
Star Trek: Prodigyseason 2 takes place in 2384 and 2385, but it’s unclear if the USS Enterprise-E is still active at this time.

'
Kate Mulgrew seeing the folly of Admiral Janeway becomingCaptain of the Enterprisewas a smart move on her part. Mulgrew understands Janeway’s legacy is tied toStar Trek: Voyager, and it was more fitting and resonant for Kathryn to lead a new version of the USS Voyager inStar Trek: Prodigyseason 2. And, after all,Star Trek: Voyager’s legacy intertwined with the Enterprise’s anyway whenSeven of Nine (Jeri Ryan) becomes Captain of the USS Enterprise-GinStar Trek: Picardseason 3.