3 guesses as to what delayed the update...
Find the cockpit, and uhh... communicate somehow with the guy who's trying to be a pilot? (Nunzillor)
(tails, failure)
"Uh... do you know how to fly this thing?"
Absorb unconscious person to gain more power.
(tails, failure)
It seems you cannot simply absorb their physical forms.
Gently insert head into head shaped indent.
(heads, success)
You feel yourself joined to the system again, though there seem to be more barriers this way, perhaps for safety. You remember your way around, though. The ship's mind seems awake now. There are 2 parts to it. You feel a large, simple, animal-like mind that is unaware of you, and another entity that seems preoccupied with the internal systems of the ship but seems to be trying to interface with you.
The "emergency download" has ceased, as whatever prompted it seems to have been fixed.
Discover way to gain more souls! (Deus)
(heads, success)
Your fellows seem awfully preoccupied with the newly fixed machinery. Surely at least one of them wouldn't notice if you crept up behind them...
Sit in a corner.
(tails, failure)
There are no corners in the cockpit.
So, bats are ships. Our ship is a bat.
I wonder who was on the other ships?
Search area around the ship thoroughly.
EDIT: Ah, yeah, not quite a bat. Just very bat-like.
(tails, failure)
It seems to be just a sloped, stony surface. You don't want to venture too far, though, for fear of losing sight of the ship in the darkness.
((Yeah, looks like the ship was bat-like but not a bat))
See if there are any preset coordinates in the system that were entered before the disaster happened.
(tails, failure)
It's a relative coordinate system, centered on the ship, appearing to operate on "Go x distance y direction, w distance z direction" on autopilot. Whatever maneuvers were entered before the ship became damaged, they seem to have become lost.