Hello there, I am new to speedrunning this game and after watching Tei and Dawned videos, I noticed there were no brown Scout ship from their runs. Is that a bug or do I need to play a specific version for that happen?

The Brown Scout Ships sometimes suicide themselves to the red archers, I don't think it depends on version of the game though. However I haven't tested that on any difficulty other than Hardest.

That's make sense then, I checked with RevealMap/NoFog and yea it seems the brown AI is sometimes confused for some reason.