Considering I was trying to only kill people who definitely deserved it (the mercs, basically) and at the point that I got to Panchaea the only non-lethal weapon I had was a Stun Gun (which I found consistently extremely useful throughout the game) and not nearly enough CyberBoost, even with my maxed out cloaking system upgrade and my maxed out energy bar upgrade, to slip quietly past them, my solution to the crazies was ridiculous but efficient.
Basically, I sprinted at them as fast as I could, and I JUMPED OVER THEM. I jumped over every single one of them with my maxed out cyberlegs sprint speed and jump height. (You get even more air if you hold down the jump button as you're leaping.) I jumped over several of them at a sprint.
It was a ridiculous and amazing solution to the problem. (Although at that moment I did long for the otherwise quite useless P.E.P.S.)
It made me the saddest of all pandas that the sniper rifle (which I found tons of ammo for, but never used because it was unsilencable) can't be silenced; I find the crossbow extremely hard (if rewarding) to use because of compensating for the arc of fire, so I really wanted a lethal, quiet long range weapon that didn't have an arc. (Also, crossbow arrows seem like they SHOULD be retrievable, but for whatever reason they're not?)