I'd have to go with these 3 games (They're all pretty good games, it's just that the noted issues I had really put me off):

Metroid Prime - Too much backtracking, really dull, lifeless world, and a real lack of innovation.

Ninja Gaiden - Too much trial and error gameplay, a broken save system (saving anywhere should be an option), and derivative

gameplay.

Elder Scrolls 3: Morrowind - Bland world, broken combat system, and too much reading.

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