During the game, the player shifts somewhere between these levels of perception and knowledge. From being confronted with a domestic breakfast situation, I quickly latched on to the simulation context through cues from the game. My knowledge becomes greater than that of my PC. The commands I give still need to be approriate in the PC's perceived reality however. This produces an alienating feeling of both inhabiting the PC and hovering above it. When the simulation-protocols are partially lifted during the endgame, this alienation is enhanced by an even greater disconnect between PC-perception and valid commands.

(http://www.autoadmit.com/thread.php?thread_id=5639025&forum_id=2#48372214)

Also, looking through the source code showed an astonishing amount of depth (and some stuff that was apparently inaccessible). For example, did you try...

Typing Linux commands (cd, ls, man)?

Eating the robots?

Opening the bathroom sink while a technician is onboard? While Janet and David are onboard?

Stuffing a robot into the fridge?

Opening the cargo bay while someone was in there?

Scratching your back while a ship is docked?

Brushing your teeth while a ship is docked?

(http://www.autoadmit.com/thread.php?thread_id=5639025&forum_id=2#48372568)