Mario's Pad
After you explain to Toad that the bridge to Bowser's Keep is out, listen to him talk and say yes or no to his questions accordingly. If you say no when he wants to know if you need to know how to use items, you'll get to keep the Mushroom--an item that heals 30 HP, which might come in handy.

Mushroom Way
On the first scene, raise yourself up to level 2 on Goombas(Para Troopas have too much defense)--you may need to make a few stops back to your pad to heal yourself, but it will be worth it. Fight your way through and defeat the goomba holding Toad, and Toad will give you a Honey Syrup. In the next scene, kick a goomba off a rotating flower so you can jump to the right and rescue Toad again--this time from a Para Troopa. Just use one timed punch.
The next scene provides a mini boss--a Hammer Bro. Avoid the Spineys and go around the southern bend. You can see the Spineys better that way. When you reach the Hammer Bro., brace yourself for a battle. Time a jump on one, and then do a timed punch. The first one won't be hard, but by the time you get rid of one, the other one will have used Valor Up. Watch out for Hammer Time, and try to get timed defensive hits the best you can. About three timed Jumps and a timed punch should do the second one in, freeing Toad and giving you the Hammer, free to equip.

Mushroom Kingdom
Head into town. Go to the inn, and save. Then walk over to the castle and hop on Toad's head. As you come close to the first doorway, jump on top of it from Toad's head. In the center of the doorway, hop up to unveil a secret Frog Coin box. Then talk to the Chancellor, and go down to the vault to collect some of the boxed goodies.
Stroll outside and you'll find a crying Mallow. Let him into your party and then head on down to the shop and buy a shirt and pants to equip Mario and Mallow. Next head to Bandit's Way.

Bandit's Way
Just follow the course as Croco takes it, building yourself up to level 3 along the way. Make sure you rest yourself before you go far, though. Get the box Croco misses--it's an invincibility star. Run into all the K9's you can until your power runs out, then go back on course.
When you get to the last scene, run up behind Croco and press A three times, and then he'll battle you. You'll mostly only attack with Mario's Fire Orb and Hammer, and Mallow can do some healing with his HP Rain, and he can use Honey Syrups too. Soon after he uses a Weird Shroom, he'll give up. Take the trampoline back to the area's start, then head into the Mushroom Kingdom.

Mushroom Kingdom--conquered
Save every mushroom person you walk into, and you may recieve a prize if you talk to them afterwards. In the two-story house, rescue the people downstairs first, then the child upstairs to recieve a Flower Tab from the father. Hit the inn before you barge in the castle. Go in the vault, then heal yourself in the Toadstool's Room. Level yourself up to 5 or 6, then heal yourself at the room again, and go in and challenge Mack in the throne room. Use Super Jumps on him, and when the Shysters come out use Mallow's Thunderbolt. Bring plenty of Mushrooms and Honey Syrups. After a few bouts like this, Mack should give in.

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