Just before dinner, Pajama Sam is whisked away by his Choc Amok cookies to the fats and sweets party in Mop Top Island. After devouring the huge piece of cake in front of the doorway, Sam decides to finally leave the party saying he doesn't want to spoil his dinner. All the sugar, sweets and fats are immediately offended once he has done so, and then they send him off to the candy-cane jail, while referring to him as "healthy boy", until his trial has now been set for later next month.
While in the candy-cane jail, Pajama Sam meets a broccoli named Florette and a delegate of the food group peace conference. Pajama Sam manages to free Florette and himself from the sweet's prison. Pajama Sam follows Florette to the food pyramid and meets his familiar friend Carrot (from Pajama Sam 1), who was leading the peace conference. Carrot explains to Pajama Sam that General Beetfoot will declare war unless the conference goes on. Unfortunately, four other delegates are missing. Pajama Sam needs to locate these other delegates and get them out of trouble before the General notices they are missing and declares war.
After all the delegates are rescued, Sam goes to the peace conference, but instead of finding the six delegates working together, he finds them arguing over which food group is better, and then after hearing enough of the delegates arguing, Sam yells and then gives an inspiring speech about working together.
Originally released as a Junior Adventure for children ages 3–8, the aim of this game is to get the 4 missing delegates for the meeting to declare happiness between the 6 food groups, with the intent of teaching children about healthy eating. Whenever a player starts the game, the layout is randomised.
^ ab"Pajama Sam 3 - Review Corner". May 2000. Retrieved June 11, 2015. Kids will love this engaging adventure that gets them thinking and solving problems, learning about the importance of a balanced diet, and having fun!