The End of Flutter Valley (1) - S1-E1
Continuity mistake: When Rosedust is addressing the Little Ponies at the start of the Sun Tuesday celebrations, Buttons, Fizzy and Cupcake are sitting in front of her. Yet when it switches it to the witches' view a yellow Pony (could be a wingless Lofty, which constitutes another mistake) is sitting in front of Buttons and next to Fizzy when she wasn't before. When it switches back to Rosedust's view the yellow Pony is gone. Also, two of the Bushwoolies that are sitting with the Ponies move places.
The End of Flutter Valley (1) - S1-E1
Continuity mistake: At the beginning of the song "From The Sun" there are a group of Ponies sitting and dancing in front of the Sunstone. Paradise (white Pegasus with red hair) is in the group, yet she does not feature at all in this set of episodes. As the camera draws back and the Sunstone starts to send out rays of light, Paradise turns yellow, which is another major mistake.
The End of Flutter Valley (2) - S1-E2
Continuity mistake: When we first see the Furbobs arguing on the bridge they are coloured orange and pink. When the Bushwoolies run up to them, the orange Furbob is now blue. In a similar problem, Wishful (the purple Bushwoolie) is a tan colour when the camera shows an aerial view and the Ponies approach, but changes back to purple when the Furbobs begin to talk.
The End of Flutter Valley (2) - S1-E2
Continuity mistake: Since Reeka and Draggle didn't manage to capture, harm and/or kill the Little Ponies, Hydia forces them to eat doughnuts. The doughnuts on the table have the holes coloured in, yet the doughnuts that Reeka and Draggle are holding have transparent holes.
The End of Flutter Valley (3) - S1-E3
Continuity mistake: When Reeka is conjuring the fake rainbow to distract the Flutter Ponies, the grey pot on her head is blue for a while.
The End of Flutter Valley (3) - S1-E3
Continuity mistake: As Baby Cuddles falls from the bridge, one of her locks of hair hasn't been coloured in and flickers transparent on and off.
The End of Flutter Valley (3) - S1-E3
Continuity mistake: After the fall from the bridge when the Ponies, Spike, the Furbobs and Bushwoolies are standing around and the Bushwoolies are asking why the Stonebacks hate the Furbobs, the purple leaves on Gusty's symbol haven't been coloured in, leaving them white. Also, Baby Cuddles' eyes are too low down on her head giving her a deformed look.
The End of Flutter Valley (3) - S1-E3
Continuity mistake: As the Stonebacks confront the Ponies, Furbobs, Bushwoolies and Spike near the apple tree, Spike decides to snort at the Stonebacks. As he says 'Maybe I could snort to them. I heard my dad do it once a long time ago.' his right ear disappears and reappears multiple times.
The End of Flutter Valley (4) - S1-E4
Continuity mistake: As the group of Ponies and friends enter Furbobia they pause to admire the beauty of the place. Cherries Jubilee (peach coloured Pony) is in the back of the group, yet she does not feature at all in this set of episodes.
The End of Flutter Valley (4) - S1-E4
Continuity mistake: As the Ponies and friends are fleeing from the Stonebacks, Fizzy is incorrectly drawn with Pegasus wings.
Continuity mistake: When Megan and the Ponies are in Muensterville looking for Knight Shade, the mayor of Muensterville traps them in a giant mouse trap. As Lofty flails around she's drawn with three hind legs in some of the frames.
Continuity mistake: The adult Ponies, the mayor of Muensterville and a police officer from Muensterville go to confront Knight Shade about the loss of the babies' shadows. As Knight Shade kicks the mayor and the police officer into the Ponies, Lickety Split is visible in the group of Ponies. But Lickety Split did not set out with the search party and should be back at Paradise Estate.
Continuity mistake: As the adult Ponies try to reason with the mayor of Muensterville to let them out of the giant mouse trap, the part of the bar in front of North Star's neck disappears as Lofty is talking. North Star's neck and lower jaw also disappear during the same shot.
Sweet Stuff & the Treasure Hunt - S1-E25
Continuity mistake: After an unsuccessful game of Hide and Seek with the unicorns, Sweet Stuff passes the river. Three of the baby sea ponies (Ripple, Water Lily and Sunshower) are afloat. They start singing and in the close-up shot when they finish, Water Lily asks Sweet Stuff, "Wanna play with us?" There is another Water Lily on the left instead of Ripple. Also in this shot, Sunshower's mane changes from golden to mint green and her float changes from blue to pink.
Continuity mistake: After Megan, Posey and Cherrie's Jubilee sing 'Remember, Always Look Twice,' Posey says, "I just can't believe flowers could be capable of such things." Whizzer then flies towards them and says, "We found them, Megan. The lake, the lake" (referring to the Crabnasties). As she walks towards Megan to give her a ride, Cherries Jubilee's eyes turn blue. When Whizzer flies off with Megan on her back, Cherries Jubilee's eyes are back to green.
Baby, It's Cold Outside (2) - S1-E42
Continuity mistake: When King Chalatan freezes Edgar, Edgar's crown falls off onto the floor. After the guard asks "But sire, what of the prince?" the frozen Edgar is shown wearing his crown. But when Megan is singing and goes over to Edgar, Edgar's crown is back on the floor. In a similar mistake, when King Chalatan is crying and his tears fall on Edgar, Edgar is wearing his crown but it is not frozen. In the next shot, Edgar's still wearing his crown, but this time it's frozen.
The Golden Horseshoes (1) - S2-E6
Continuity mistake: As Sweet Stuff is talking to Surprise near the beginning of the episode, both of their legs are drawn far too short, making them look deformed.
Continuity mistake: At the beginning of the episode when Baby Fifi tries to feed Sniffles (pale purple newborn twin with pale pink hair), there is a close-up shot of her and Snookums (pale purple newborn twin with pale purple hair) in their high chair and the food in their bowls appears to be water. Sniffles throws her bowl onto Baby Fifi's head and the food turns brown. In the next close-up shot of the twins where they giggle, the food in Snookums' bowl has also changed brown.
Continuity mistake: During the song 'Babysitting,' Snookums has a pale pink body and medium pink hair as she bangs cymbals and Sniffles has a medium pink body and pale pink hair as she bangs a drum while Baby Fifi sings, "Babysitting, babysitting. Oh my aching head is splitting." Sniffles and Snookums then climb onto her back for a ride and for a split second, Snookums' hair and Sniffles's body both turn a darker shade of purple than at the beginning of the episode.