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Nope. The form Deoxys is set in each game -- there is only one sprite present, along with base stats.
I can't remember them all, but I think it goes Normal: Ruby/Sapphire, Attack: FireRed, Defense: LeafGreen, and Speed: Emerald.
To quote Bulbapedia: "In Generation III, its Forme depends on which game cartridge it is on and cannot be changed without trading."
Actually, a Deoxys in the wild or belonging to another player will always be in its Normal forme. FR DOES have two sprites. You can edit them with nse/unlz for sure, and maybe with G3HS too.
Well you could probably add in the other deoxys forms using your fav pokemon editor and then script in some meateors using jpans hacked engines change pokemon species to check the pokemon in the fornt of your party and if its deoxys to change it into one of the forms.