One of my biggest pet peeves include spy agencies that have hundreds of spy satellites apparently stationed over everywhere so they can instantly zoom in on and track the movement of cars (with resolution good enough to read license plates) as in "Enemy of the State" and "24".
Then there's the hero who gets shot in the chest, only to appear in the next scene wearing a magic sling that can cure everything.
Another is the lonely hero finally finds someone to love only to have her killed off a few minutes later.
Explosions in space, janking and banking like a fighter in a vacuum, dodging a ray gun that shoots at the speed of light - those are too engrained to ever get them out of science fiction movies.
Oh, did someone mention "
I need a montage" from Team America? Great stuff.