Train services between Tung Chung and Sunny Bay will end earlier next Saturday to make way for track diversion work as part of the line's extension, MTR officials said on Wednesday.
On April 19, Tung Chung Line services will conclude two hours earlier at 11pm.
Free shuttle buses will be provided for people to travel between the two stations.
The railway company said the last train from Tung Chung to Hong Kong station will depart at 11.01pm, while the final train from Hong Kong to Tung Chung will leave at 11:07pm.
Ben Lui, MTR's chief of airport segment, said 100 extra staff will be deployed to help passengers along the line.
"If there are any unexpected situations like severe weather, our team will work quickly to fix it," he said.
"If these issues might affect train services the next day, we will communicate through the news media and social media as soon as possible."
The extension project, which includes building a new Tung Chung East station, is expected to finish by 2029.
The MTR said foundation work for the new station has been completed and everything is progressing well.