Lac-Mégantic Mayor Julie Morin vowed to make sure Netflix removes the footage - she also wanted the company to look through its catalog for shows using images of the event.
The post-apocalyptic thriller, which stars Sandra Bullock, features a scene in which the actress is flicking between news programmes, all featuring footage of simultaneously unfolding disasters.
47 people were killed when a train carrying crude oil derailed in the town outside Quebec, destroying half of its downtown area on July 6, 2013.
A spokesman for the company told The Canadian Press that "Netflix and the filmmakers of Bird Box have chose to replace the clip", adding they're "sorry for any pain caused to the Lac-Megantic community".
Nathalie Roy, Quebec's minister of culture and communications, took to Twitter earlier today to praise the streaming giant's decision. In a tweet, which you can check out below, Roy said that "the move was expected by respect for the victims of this terrible tragedy, their families and the entire community of Lac-Mégantic".