Multiplayer: I just want to play on my own. I only liked multi-player when I make it on my own BattleShip in Java, it's a local multiplayer made by me that's why I love it.

Bethesda games: I just find their games so boring... and empty. I usually like open world (or better large Sandbox level) but not on Bethesda games.

FPS: (with the only exception of Far Cry 1). I just love stealth, RPG, platform, adventures, actions etc... but I don't like modern FPS.
Also I like TPS. 3rd Person View is easier when you want to play stealth.

Gamepad: I can use mouse, keyboard, trackpad, even touch screen... the only type of gamepad I can use is the nintendo 3ds/ds/gameboy "pad"

^ What he said.

Multiplayer: Especially the "me too" implementation in games that will have dead servers after 3 months. Condemned 2 I'm looking at you.

Microtransactions: Well judging by how much money they make they must be very popular. What was PT Barnum's line again? Oh yeah a theres a sucker born every minute.

QTE's: People actually like this crap? Well there was this one guy who liked putting needles into his junk so I guess they fall under the same umbrella of people who like QTE's.

Timing/ed puzzles in general. Or timed quests. I prefer to take games at my own pace, and if that means I spend 30 minutes staring at foliage, so be it.

Gimmick control based gameplay, but this has only become an issue as of the Wii era. Throw out every single sensible design principle and waggle your controller/use it as an awkward depth sensor/twist your hands around instead of just using two sticks or pressing a button!

Not really but sorta multiplayer: You know, like invasions in Dogs_Watch and other such things where a player can 'attack' your game without warning or ability to switch it off. Where you'll be going along your merry way and SUDDENLY!

Extreme rubber banding. If I curbstomp the AI, I want them to stay curbstomped. I don't want 'the pack' to suddenly catch up or to have one wily racer just suddenly rocket up behind my back. This is a problem mostly in Nintendo games, bringing me along to:

Loaded Dice/Cheating AI. Like how the AI will get tools and guns for free upon founding a city in Colonization. Or how in the original F-Zero, if you smack into an AI vehicle, you're likely to go smash into a wall whereas they only get a small nudge. Or most of the mechanics of Pokemon. Actually, Nintendo in general has a fetish with cheating in games that would be outright illegal as per the country laws.

As already mentioned: Stealth in non-stealth games. And again, especially in Zelda games.

well, annoying quest markers, "achievements" and gamepads have been mentioned above so I'll only add:
Non centered 3rd person camera - oh my god, I hate it so much, when I try to move a character ana my camera is like a mile away from shoulder - for me any type of precise movement is extremely annoying...
Oh and for some reason like 99% of 3rd person games prefer this horrible camera =(

From Baldur's Gate 2:
The banter between characters. It is particularly obnoxious when I am trying to do something and the banter interrupts me. It's especially annoying when timed quests are added as a result of such things.

From the Ultima series (4 and onward):
The need for reagents to cast spells. It unnecessarily increases the amount of micromanagement needed, and adds a significant limiting factor to the use of spells that don't need that limiting factor. The games would be so much better if all reagents except mandrake were eliminated, and spells not currently requiring mandrake became free of reagent costs. (MP would still function as a limiting factor.)

How do you feel about zero-difficulty settings, like the Phoenix mode of recent Fire Emblem, or the Casual difficulty of Dust: An Elysian Tail? (In both cases, you get unlimited immediate revives, so the difficulty effectively becomes 0 as long as the mode is enabled.)

I have no probs with it. Because its just altering a few values for revives or ammo or whatever and doesn't need spending development money and time as does spending time and money on entire separate mechanics that no one but the very worst would use. If it doesn't take dev time or money, I'm ok with it because it opens up the game for players who may become interested in the original mechanics. But I hate it when they add something and its still a zero sum to more experienced players. If you're gonna put in mechanics, IMO you should put in those that everyone will use, instead of a baby-mode mechanic.

Motion blur.
Quest trails.
Quest arrow.
Perks leveling.
Cover systems. (ie. Gears of War, Deus Ex Human Revolution)
Focus mode. (ie. Teef 4, upcoming Deus Ex Mankind Divided)
Nanosuit.
Preorder incentives.
DLC.

THOSE BLOODY QUICK TIME EVENTS!!!!!!!!!!!!!!!!

They break immersion really badly.

Press X to pay respects.

Oh lots been mentioned already so not repeating them.

-- Too much hand-holding in open games, all the time telling me what to do when and how and where. Not really open then, is it now?

-- Too easy games, but then, I do not like too hard games either. Why cannot the developers make games that are perfectly balanced for my skills? ;-)

-- PC games demanding (or plays best with) a console controller. Usually a result of a shoddy port.

Lots of points made here seem to overlook the "but most people seem to like" part of the OP. I agree that quite a few features mentioned are very annoying, but I don't see how most people would like them, no matter how loosely we use "most" here.

That's true! Also, I meant more fundamental game features that take up a large part of a game, not little things that crop up here and there.

Because it is not exactly easy to make a perfectly balanced game, not to mention that different people have different skill levels.