For instance:
If Scouge cannot move, why does he have wheels?
If Chomper is nothing more than teeth with eyes, how does he move?
Why does being near Kaboom make him explode when other monsters can come up next to him just fine? What does he find so repulsiuve about you?
Where does the UFO Mothership keep all those little flying saucers?
What strange creatures pilot those pesky UFO's any way?
You can destroy a Mothership by cannonfire or dropping a boulder or keg on her. And yet, she can withstand being submerged in lava?
If those truly are ice cubes, why doesn't fire destroy them?
If Ghosts cannot travel across water, how come they can travel on ice?
Are Ghosts the dead spirits of all the citizens of Wonderland's past? If so, why do they hate Stinky so much? Or are they of all the monsters Stinky and Loof killed in the original?
Why is Loof eating keys?
Our heroes have the infatigable energy to push boxes, crates, and boulders. Yet they can't stand having one pushed into them?
Wonderland is truly a game for all ages, but still you have to wonder...where did all the little Stinkers come from?

Any other wierd thoughts?