I'm sure this has been mentioned elsewhere, but my ranged damage is severely bugged. This affects all of my ranged weapons, and its not a visual bug. For instance, I have the "Emergency Stop" gun, and currently it is doing 36 damage. My silenced scoped rifle is doing 18 damage with only a 250% sneak bonus.
I have: 5 points in Guns. 5 points in Observation. 5 points in sneak, 5 engineering, 5 lockpicking
Perks: Sharpshooter, Point Blank, Through the Keyhole, Crabble Rancher, Pickpocket.
I do significantly more damage using a melee weapon that I haven't skilled for at all. This bug that has effectively made my entire build not only useless, but actively worse.