This is why I enjoyed the Acts of Vengence event.  Mixing up the foes made for some fun stories.  Another example would be making the Kingpin such an important figure in Daredevil.  Some matchups I'd like to see:

Hulk vs Ulik the Troll (Ulik gives Thor a run for his money and his savagery would be a good match against an enraged Hulk)

FF vs the Sinister Six (could be a good matchup the way the Mr Fantastic vs Doc Ock match was). 

New Avengers vs the U-Foes (It wouldn't be much of a fight against the classic Avengers but with the more street level New Avengers, it could be a good fight).

Alpha Flight vs Magneto

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That would be interesting to see.

And for some reason I want a New Mutants versus Apocalypse fight.

DC

The Manhunter (Simonson) vs The Scarecrow

I can't think of a current incarnation of any major characters I'd care about fighting anybody. A time machine would help.

You give me 1970s Machine Man, and I'd like to see him fight Kraven the Hunter. Or Klaw. Or the U-Foes. In his own book.

1970s Fantastic Four vs the Abomination. FF vs Hydra and the Dreadnaughts.

1960s Doom Patrol vs Kobra. DP vs Solomon Grundy. DP vs the Monster Society.

1970s Cap America vs the Molecule Man. Cap vs Mysterio.

1970s Daredevil vs Modok. DD vs Dracula. DD vs Union Jack.

And so on.

Aquaman vs. Gorilla Grodd

Batman vs. the Ultra-Humanite (Albino ape version)

Plastic Man vs Doctor Sivana

The Question (original) vs the Riddler

The Teen Titans (original three plus Wonder Girl) vs Gorilla Grodd

She-Hulk vs the Leader

The Black Panther vs Kraven

Namorita vs Doctor Octopus

Power Man & Iron Fist vs the Absorbing Man

[edited to fix formatting issue]

Edited by Wallace Sellars on 25 October 2009 at 7:43am

The Punisher vs Dr Doom