Season 1 Episodes
1. Several Leagues Under the Sea
After Flapjack brags about Bubbie's speed, he ends up involving himself, K'nuckles, and Bubbie in a race through the Sea of Teeth against an evil inventor and his mechanical Alpha-Whale.
2. Eye Sea You
While doing their laundry K'nuckles and Flapjack decide to spy on Bubbie, to find out what she does all day.
3. Kid Nickels
K'nuckles bets Flapjack in a poker game, resulting in the two having a falling-out. K'nuckles replaces Flapjack with a young boy named Kid Nickels, while Flapjack becomes a banker's apprentice. K'nuckles ends up missing Flapjack and challenges the banker to win him back.
4. The Sweet Life
Flapjack and K'nuckles befriend the richest lady in Stormalong, Lady Nickelbottoms, to steal from her mansion (which is made from candy). When their plans go awry, K'nuckles finds himself challenging Lord Nickelbottoms in a candy-based duel to the death.
5. Several Leagues Above the Sea
The evil inventor's twin brother builds a "Grand Flying Contraption" to impress Bubbie, on whom he has a crush. However, when Bubbie does not return the same feelings (she sees him as a friend, rather than a love interest) he becomes very sad. Because of this, Flapjack and crew are inadvertently led into danger.
6. That's a Wrap
In a scheme to trade wrappers with Peppermint Larry in exchange for candy, K'nuckles and Flapjack search for a "+" because Peppermint Larry says he will give them 100 pieces of candy in exchange for it.
7. Cammie Island
Captain K'nuckles and Flapjack stow away on a ship that they believe will take them to Candied Island. Instead, they end up on the mysterious Cammie Island; Flapjack befriends the misunderstood (and lonely) monster of the island.
8. Shave and a Haircut, Two Friends
When Captain K'nuckles believes he has found a map to Candied Island, he wants Flapjack to read it to reach their destination. However, Flapjack (in dire need of a haircut) cannot. They go to Doctor Barber for a haircut, only to find that the barber has stolen the map.
9. Skooled
When Flapjack thinks he's unable to tell directions, he and K'nuckles decide to go to school. But K'nuckles finds himself unable to keep up with the other students and later plans to steal the candy rewards that the teacher gives out. However, he finds out something strange about the school.
10. Snarked!
When they assume that Bubbie has been kidnapped by a group of foreign sailors known as the Snarks, Flapjack and K'nuckles sneak aboard their ship to locate her.
11. Foot Burn
Flapjack and Captain K'nuckles suffer from a severe case of foot burn (sunburned feet) after sleeping in the sun. On their quest to treat it, they discover a hideous trolley driver whom K'nuckles knew from his past.
12. Hand It Over
Captain K'nuckles is accused by a pirate captain of stealing his hand, leading Flapjack to believe that K'nuckles is nothing but a liar. This puts a strain on their friendship, causing everyone else believes that K'nuckles stole from them.
13. How the West Was Fun!
For Flapjack's birthday K'nuckles, Bubbie, and Flapjack sail west in search of Candied Island.
14. K'nuckles Is a Filthy Rat
Flapjack adopts a rat he rescues from a flood and names it K'nuckles II, but his new pet ends up infecting everyone in Stormalong with the plague.
15. Sittin' Muscle
Flapjack, Captain K'nuckles, and Bubbie journey to the Bottom of the World to reclaim K'nuckles' long-lost "sittin' muscle" (his buttocks).
16. Knot Funny
When Captain K'nuckles believes he has accidentally cursed Flapjack with the inability to speak he tries to find a cure, only to discover it to be a ruse by Flapjack to attend the local Knot Festival.
17. Lookin' for Love in All the Wrong Barrels
After relating a tale that reveals why he doesn't trust women Captain K'nuckles ends up falling in love with his own reflection, believing it to be a beautiful woman.
18. Beard Buddies
When Peppermint Larry hosts his annual Adventure Beard-Off Contest Captain K'nuckles enters the contest, with Flapjack pretending to be his beard.
19. Pun Times with Punsie McKale
Flapjack finds out Peppermint Larry is preparing for the Stormalong Pun-Off, in which he will compete against comedy legend Punsie McKale. After Flapjack and Larry are knocked out by Punsie's puns, K'nuckles steals the show.
20. Balance
Flapjack learns to balance a board on the waves (surfing) and becomes Stormalong's biggest film star.
21. Mechanical Genie Island
Flapjack and Captain K'nuckles get stranded on an island inhabited by a mechanical genie; after fishing for food, they discover that not everything is as it seems.
22. Revenge
Captain K'nuckles tells Flapjack that the more enemies an adventurer have, the greater adventurer he is. This results in Flapjack going on a quest to make enemies and all his plans backfiring.
23. Oh, Brother
Desperate to find a younger sibling after Captain K'nuckles calls him "a baby" out of annoyance, Flapjack asks Bubbie where babies come from and mistakenly adopts a duck as his new "baby brother".
24. Panfake
When the Candy Barrel is shut down by the Dock Hag due to a misunderstanding, Peppermint Larry tries his hand at puppetry. He eventually finds success with "The Amazing Adventures of Pancake" – a spoof of Flapjack and his adventures, much to Flapjack's dismay.
25. Lead 'Em and Weep
Believing K'nuckles to be a bad influence Bubbie tells Flapjack to stop following the pirate, but to lead him instead. Unfortunately, after taking the advice of an animal trainer Flapjack accidentally hypnotizes K'nuckles into believing he is a seal.
26. Sea Urchins
When Bubbie sends Flapjack and K'nuckles to get shelf polish on the "bad side" of town, they get into trouble with a group of alley kids and ultimately are challenged to a dance-off to get their possessions back.
27. Love Bugs (Dockmouth)
Flapjack denies he is in love with Sally Syrup, despite the little red hearts that pop up around his head.
28. Whale Times
Bubbie falls in love with a whale named Harvey, who kidnaps Captain K'nuckles and Flapjack to work in his factory on Laundry Island – unknown to Bubbie, who thinks they are ignoring her.
29. Sea Legs (Too Big for His Britches)
After Flapjack finds a pair of legs adrift at sea, Captain K'nuckles uses them to terrorize the people of Stormalong Harbor. However, when a sea monster's torso comes to reclaim the legs a battle for ownership ensues.
30. No Syrup for Old Flapjacks
Flapjack is told by Bubbie the origin of his name before getting his first "special flapjacks". However, Captain K'nuckles forbids Flapjack from eating pancakes without syrup and the two set out to solve the recent syrup shortage.
31. Plant Man (The Rottenest Botanist)
When Flapjack discovers some fresh fruit (which hasn't been seen in years) and Captain K'Nuckles eats it, the two head to an island to get some more but a mysterious plant man keeps getting in the way.
32. Fish Heads
The Dock Hag catches Flapjack and Captain K'nuckles littering and sentences them to community service collecting fish heads. Doctor Barber offers to pay them for the heads (much to their delight), but they soon discover his true intentions for the fish heads.
33. Something's a Miss
Flapjack keeps getting mistaken for a girl so he and Captain K'nuckles attempt to literally "man him up", only to discover that his voice is the problem.
34. Gone Wishin'
Captain K'nuckles steals a mermaid queen's heart filled with wishes (in the form of candy) so he and Flapjack can go to Candied Island, but they quickly misuse the wishes and learn a terrible secret about the mermaid.
35. Ben Boozled
Flapjack and Captain K'nuckles are swindled by a mysterious man named Ben Boozle and are forced to work on his ship until Flapjack can achieve the rank of captain.
36. Candy Cruise Blues
Flapjack and Captain K'nuckles sneak aboard a candy cruise ship, but accidentally anger Poseidon when they destroy the ship's figurehead.
37. My Guardian Angel is Killing Me!!
Flapjack is dubbed Captain K'nuckles' guardian angel by Bubbie but when Flapjack annoys him with constant protection, K'nuckles fakes his own death to have peace.
38. Dear Diary
When Captain K'nuckles and Bubbie read Flapjack's secret diary, Flapjack decides to live like a hermit on a remote island to keep his secrets safe.
39. Diamonds in the Stuff (Down the Drain)
Taunted by a rich boy for being poor, Flapjack and Captain K'nuckles search for diamonds that the rich boy claims are in the sewers of Upper Stormalong Harbor.
40. Tee Hee Tummy Tums
Flapjack learns from Captain K'Nuckles about a strange man who trades combs in exchange for candy. After finding the man's family is in a similar situation to his, Flapjack helps the man (Tee Hee Tummy Tums) sell his combs.