Okay! Hotter hotfix!!!! Amended the level data for level 2, amended enemy load code (cages are inert enemies you can walk on), now TGO-03 properly spawns in a downed state when the cage is opened!
We can now get TGO-03, the cage respawns, but leaving it alone has no issue. I get the console upon level completion, can thankfully be closed with the button and the game continues as normal. Thank you for fixing this issue :D