The final 41 stages included in the game are:
Battlefield
Final Destination
Delfino Plaza
Luigi's Mansion
Mushroomy Kingdom [Overworld/Underworld]
Mario Circuit
Rumble Falls
Bridge of Eldin
Great Sea
Norfair
Frigate Orpheon
Yoshi's Island
Battleship Halberd
Lylat Cruise
Pokemon Stadium 2
Spear Pillar
Port Town
Castle Siege
Wario Ware
Distant Planet
Smashville
New Pork City
The Summit
Skyworld
Mario Bros. (it's in there, the 4th part)
Flat Zone 2
Pictochat
Electroplankton
Shadow Moses Island
Green Hill Zone
Donkey Kong Arcade
PAST STAGES
Rainbow Ride
Temple
Brinstar
Yoshi's Island
Corneria
Big Blue
Onett
Green Greens
Pokemon Stadium
Jungle Japes