When Thomas started to fall into the cavern, his driver and fireman jumped out of his cab. But when Rocky rescued Thomas, his driver and fireman weren't standing next to the cavern.
During the climax of the movie, Thomas' driver and fireman jumped out of his cab when he was heading straight for the water. But when Rocky rescued Thomas for the 2nd time, his driver and fireman weren't standing next to them.
When Emily brakes at Knapford, her bogie wheels spark, but these wheels are not fitted with brakes.
In the US dub, when Gordon shouts at Thomas, he has his UK voice.
Even though Thomas had a hard time telling Sir Topham Hatt about Sailor John and the treasure, Ryan was somehow able to tell him all about it.
Even though he found out that Thomas was telling the truth, Sir Topham Hatt didn't apologize for not believing him.
When Thomas apologized to Ryan, the latter apologized for getting him in trouble. But since Ryan didn't do anything bad, he didn't have to apologize to Thomas.
Even though Annie and Clarabel saw Thomas derailing Gordon's express coaches, they were unaware that Sir Topham Hatt was sending Thomas to the construction yard and giving his branch line to Ryan. But since they were at Knapford Station the whole time, they should've known that Thomas was being sent to the construction yard, and that Ryan was going to work on his branch line.
Before Thomas causes the accident with the express coaches, Henrietta can be seen behind Toby. However, after the crash she disappears.
Rex's leading bogey disappears in several shots.
In the credits scene with the final illustrations, Gordon does not have any tender wheels.
Thomas' scratches disappear and reappear several times.
When Daisy first arrives, Annie and Clarabel are missing from behind Thomas.