on the menu list where it says continue game, down you will find a box that says new game you press it save and press yes and you will delete the other file and have a new file.
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make a new file and save it
The only time any GBA or DS game ever does that is if the cartridge (game pack) itself is damaged.
Start a new game and when you save it will say that there is another saved file do you wish to replace it? Click A on yes. The other file will not be there but your new one will. Note: You can not have two saved users on Pokemon Emerald or any other game of Pokemon for GBA or GBA SP or Nintendo DS.
Click new game at the menu
just start a new game. there will be a warning, just ignore it and it will delete the file as soon as you save in the new game.