Lugia
Shadow Lugia
Mewtwo
Deoxys (all forms)
Darkrai
Shaymin
Azelf
Uxie
Mesprit
The Regis
The 3 Dogs
The 3 Birds
Manaphy and Phione
Jirachi
Rayquaza
Kyogre
Groudon
Ho-oh
Palkia
Dialga
Giritina
Celebi
Arceus
Latios and Latias
Mew
Heatran
Cresselia
Rotom (all forms)
I think I named them all not including Gen 5.