Not a plot hole if you paid any attention, menendez wanted him to suffer the rest of his life, based on the loss he has taken.


SPOILER ALERT
One ending if you don't save mason from dying when you are supposed to execute him, (shoot him twice in the chest instead of the head) and don't kill menendez at the end and imprison him instead, he comes back and kills woods in his nursery home with that necklace, he stabs him in the throat with it.

woods doesnt die if you get the good ending tho, you must have let Karma die

Well i'm not sure of the exact combination, but i'm on my third playthrough of it, going to beat it on veteran this time.
By the way, how exactly do you not let karma die? i know in one playthrough of mine she didn't, and one she did, but i don't remember a choice that saves her life

whether she dies is dependant on whether you kill harper as Farrid or not, if you do he jumps infront and takes the bullet for her, if you dont he isnt there to save her

to get the good ending overall you have to make sure:

Alex Mason isnt executed
Karma Doesn't die
Menendez is imprisoned

Well i don't want to kill harper, and i don't want menendez to kill woods, so to me that's not really the good ending

that's the sacrifice you gotta make brah

to clarify cos i think i made that confusing FARRID saves her if Harper IS killed

meaning how did he survive or are you wonder why they included him?

he explained it properly, cant really remember what he said exactly but im pretty sure they landed a bit away from the grenade which knocked them both out, Krevchenko (or however the crap you spell it) awoke first and took him prisoner, then he broke out and got captured by Menedez when he stuck him in the box

FJ has a sexy wizard? Why have I not heard about this?

I can confirm; I am sexy wizard.

Hush, my child.