if you used the clone cheat on your game you might of corrupted your save file, meaning youll have to buy a new game if you ever want to save it again. theyre cheap on eBay because theyre so old.
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There's Vizzed. It can save your game ... but it can't use Cheat Devices.
Your game as corrupted or in other words stuffed. The same thing happened to my Pokemon silver and gold so yea i know what it feels like.
Just go to Slowpoke well and save, so when you go in the game again you will enter slowpoke well.
you may have turned of the power while saving. Another reason is because the save battery died. This is most likely if you havn't played the game in a while. i also have experinced this before its probably because crystal is a old game and as he said before the save battery is dying because i own silver and the save file doesnt work.
Carefully choose the Pokemon you want to clone, you can clone only once, I know from experience. Go to any Pokemon center and put the Pokemon in an empty Pokemon storage box. Then as you save the game, right before the period appears to tell you that the game is saved turn the game off. Check the box and enjoy your cloned Pokemon!