Med-X bug? Withdrawl Someone made a fix, but it seems like a wonky solution to me.
Challenges bug? not registering some implants Electric Sheep: Upgrade Me
DLC helmet bugs? no vision modes
No Fast Travel bug? resets
Fire Grenade and EMP implant bugs with Dead Money
removing implants crash bug if at different doctor - rare
Vision Draining batteries with PA on?

PN default preset

- player level multiplier set to 7 (should be 0)
- npc endurance multiplier set to 0 (should be 7)
- strength based throwing range set to NO (should be YES)

FWE-esque preset. The timescale is not changed and remains at 20. it should be set to 5, the FWE default.

The "hard hardcore" setting...on minimum damage taken is that supposed to be 5 or is it preset wrong...

PN default is 25
Vanilla is 20
HH is 5 probably should be 50

Check Loot Rarity default settings.

Barter Default blank - should be give aways

AI detection stuff mentioned by VWGolfR1 in the comments.

Unfound loot make sure item isn't scripted.