My vote goes to Ace of Spades. I know that many people will say Halo 4 but the original Ace of Spades was legendary. It was a free indie game with a similar map format to minecraft (but all blocks have the same "health" and are only separated by colour. The rifle killed with one shot to the head so people built trench systems, fortresses etc to survive and undermine the enemy. Also if you destroyed the base of anything it collapsed so digging was a key part of the game.
Then JAGEX game along and bought the title. They introduced CoD classes, rocket launchers, sniper rifles and the jetpack. These editions made trench warfare and fortresses pointless because you could simply fly over them and thus, the game was completely ruined. You can still play the Classic version but the developer is no longer aloud to update an original game.
[b]TL;DR[/b] JAGEX bought the franchise and destroyed everything original about it, turning it into a crappy CoD clone.
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I was willing to say Mass Effect as soon as I entered the thread, but as I was about to hit the "post" button my heart told me that it was wrong. In truth, there is another. Dino Crisis. Holy. F*cking. Sh1t. The drop in quality between 2 and 3 is absolutely ridiculous, and then you have that random a$$ Dino Stalker game to just take another crap on the series (though it at least didn't pull the cliche a$$ "kill the T. Rex to make it seem like the other Dinosaur is the devil reincarnated).