Well, removing broken script to fix things isn't similar with removing broken texture. It may cost you more trouble than what it is now -- perhaps not at the moment, but at later part of the game since they often flagging things that'll be required by future event.
If you don't mind can you attach the script here for any of us to inspect? So at least we know what it does that caused this trouble.
Looks like the module OnEnter (k_punk_41aa_en) spawns the party and a separate trigger OnEnter (k_punk_fincs_en) starts the cutscene. If the party is not present but the cutscene triggers then the problem is that the G_FinalChoice global is correct (i.e. > 0) but the UNK_PARTYSHOWDOWN global is already at 1 (i.e. the party should already have been spawned). Seems like the only way that should be possible is if the scene has already been completed and everyone warped back aboard the Hawk for take-off.
Load up a save at the top of the beach before you hit the cutscene trigger in KSE and check Globals -> Numerics for G_FinalChoice and UNK_PARTYSHOWDOWN and report what the values are.
Quoting @DarthParametric's reply to your status-update that happened to be on-topic with this thread:
-- and it's likely be k_punk_41aa_en, but will wait for your confirmation on that as I think I know as well the mod that caused this.
For a start, remove the said NCS if you find one -- see how it goes.