NOTE: You need the contionous jumping badge, and maybe a few healing items.
Before you battle Huff N. Puff, go to the one cloud the keeps going up and down. Jump onto the cloud, and it will take you up. Then, you should see a badge, it will be the Super Charge ( Jump ) Badge. Make sure you use it!
Then, battle Huff N. Puff. Use the Super Charge Badge, and don't let your partner do anything. Keep doing this process 3-5 times ( or until you run low on health. ) and cantinously jump on Huff N. Puff. Depending on how many times you used the Super Charge Badge, it should have done a lot of damage to Huff N. Puff, and possibly even beat him.