A thought occurred to me tonight.
I've always thought that the Mullins chapter screen for Antiquity showing a S'pht dressed like the Compilers were see as enemies in the game was a continuity error, considering that Bungie's own internally illustrated terminal picts in Marathon 2 show S'pht from a thousand years ago that don't look like that.
But it occurred to me that all those S'pht in the terminal picts are being subjugated by the Pfhor, and so may have just been stripped naked while being marched onto slave ships or subjugated to questionable medical procedures. And maybe the ancient S'pht, in their day to day lives, were wrapped in cloaks just like the Compilers, and that chapter screen is not in error after all.