For those struggling getting certain achievements unlocked because of this bug. I was able to get %100 by doing following.

Make duplicate copies of your save game and duplicate often.


Story related achievements:
Rename profile.bin and delete GAME-AUTOSAVE folder. Replace autosave folder with a save just before when achievement was suppose to unlock. Load the game back up again and a new profile will be created. Resume and play. After achievement is unlocked exit game, delete newly created profile.bin and restore the renamed profile.bin to keep your progress.

Perk related achievements:
Rename profile.bin and load a bin file that is closes to unlocking a perk you want that achievement for. Switch game versions. (You can flip flop between the 2 but be aware the base version has memory leak problem). Unlock Perk in-game, exit game and restore the original profile.bin.

I did not have any trouble with achievements relating to collectables. If you having trouble with those try one of the solutions above or combination of the two.

Playing The New Order right now and three chapters in and I can't get any single achievement.

Am I missing something?

nope achievements are just broken.

I used the debug console to unlock most achievements and it seems achievements can only be unlocked on a fresh run of the game meaning you need to do everything in a single playthrough. delete you save data from windows and start fresh.