It's a 90's (i think) sci fi book about a man waking up on a spaceship full of cohorts. He is not a prisoner tho. At some point one of pilots is blinded by the ship passing to close to a star or something cause the way the interface works. That pilot cant be disconnected and the man starts to learn to pilot the ship. After a meeting the ships crew takes part in a cohort civil war breaks out. That's as far as I made it as I lost the book in a house fire.