If you don't skip the Omega Pirate's death cutscene:
Letterboxing and Samus' cutscene model won't go away.
The doors and the elevator will stay locked, which essentially softlocks you in Elite Quarters.
This wasn't a thing on the patcher's versions 1.22.1 and below (the only issue in these versions is that the music doesn't start playing, just like in the vanilla 0-00).
If you don't skip the Omega Pirate's death cutscene:
This wasn't a thing on the patcher's versions 1.22.1 and below (the only issue in these versions is that the music doesn't start playing, just like in the vanilla 0-00).