Continuity mistake: During the chase scene at the end of the film, P. T. Boomer (a character cut from the film), can be seen on top of Diesel 10 during the shot where he enters a tunnel.

Thomas and the Magic Railroad (2000)
Directed by: Britt Allcroft
Starring: Alec Baldwin, Cody McMains, Peter Fonda, Russell Means
Other mistake: The end credits show Annie, Clarabel, Bertie and Harold under the voice cast for "the trains", but Annie and Clarabel are rolling stock, Bertie is a road vehicle, and Harold is an aircraft, respectively.
Lily, Burnetts Grand Daughter: Magic Railroad?
Mr. C. Junior: Whatever.
Lily, Burnetts Grand Daughter: You're a Really Useful Engine, Thomas.
Thomas: Little Engines can do Big Things.
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