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I've played through the game twice with two characters (light-side female, dark-side male) but on my third and fourth (light-side male, dark-side female) characters I've run into an unexpected bug at the hidden accademy in Telos polar regions

first, upon entering the academy I was greeted as usual with the "put down your weapons" conversation and after that... blank screen. moving around caused footstep sounds but no image
I downloaded a fix that claimed to correct this bug and restored a saved game just before entering the academy. this time the conversation between Atton and Kreia triggered correctly after the "put down your weapons" but after that I was left standing in the academy while Atris is standing just outside her room and the door is open with all the sith holocron's on display which shouldn't happen until the confrontation near the end of the game

and when I try to talk to her she just turns to face me but nothing happens
also talking to Atton has him wake up but remain in his cage standing up. Kreia is sitting meditating and ignores attempts to talk and Bao-Dur is still lying unconscious
finding T3 triggers the correct dialogue, however the handmaiden's sisters have the same bug as Atris and Kreia, while the Handmaiden speaks as if I'd already talked to Atris
attempting to board the Ebon Hawk does nothing

i had similar issues just the other day, though i got stuck after the duels w/ the sisters. one of the duels actually broke up the party (auto removed atton & kreia) and made it impossible to add them back, and attempting to leave triggered the ebon hawk takeoff scene, but then blackness.

moral of the story is save a bunch in the hidden base and keep fingers crossed. after many reloads from the hk-50 battle i was eventually able to get everyone on board the hawk and allowed to take off.

if anyone has a better suggestion i'd love to hear it as well.

funny that i never remember having that much trouble w/ the base in the past. (but it has been a long time since i played)

thanks but I've tried numerous times and even started from a completely fresh character and still run into the issue
I did install some mods (unfortunately I can't remember the names of them all) but the fresh character I tried was with an empty override directory and still had the same problem

Odd! I've played through 4 times and only had the initial "put away your weapons" mis-fire on the first play through, and never encountered any other bugs like you describe.

I'm on a PC and fully patched -- even have a few mods installed. No issues in the last 3 plays.

Sorry I can't help.

XantharTheFlame

I had the exact same problem and heres how I fixed it:
I used kotor tool to extract the entire 262TEL_dlg.erf (under ERFs then modules)
I extracted them all into a folder and threw those into the override and it worked like a charm.