Yahtzee, you complain about fixed cameras in almost every game that has them. You should know better than this. This will feel like "fake difficulty" through and through, because even if you bring the cameras into the game world, the controls are always outside of it, so any difficulty that relies on awkward controls and camera will make your players angry for little gain. And really, what sort of future has cybernetic brain uplinks but not portable cameras? Does your player not carry a cell phone or something?
Still, I like the idea of a cyberpunk hero barely holding himself together using his augments, and I think the idea of getting viruses by plugging into strange computer networks has potential (really, it's the obvious question to ask about any cyberpunk setting). What if you could jack in to hardware around the ship to gain an advantage in combat? Hack the locks to trap your opponents. Overload stuff and make it explode, or maybe even break into your opponents' augments to disable them. But of course, doing so will expose you to the virus, and here the game can screw with you. Maybe it will announce that you have no health and ammo, or just make your HUD fill with static until you reboot. If you want to be more subtle, maybe it will occasionally display an enemy right behind you on your radar. Or maybe it will add insane ramblings to your quest log. Basically, integrate the madness into gameplay in a way that will screw with the player but not get in the way of the core business of zombie-bashing.