[2] The original site of Malton railway station was approximately 0.8 km (0.5 mi) west of the current GO Transit facility, where Scarboro Street crosses the tracks.

The first station was a wood-frame structure built in 1856 by the Grand Trunk Railway (GTR), which was superseded by a second frame building in 1912.

[4] Metrolinx, the parent of GO Transit, purchased the 25 km (15.5 mi) Weston Subdivision from Canadian National Railway in 2009, including this section of track.

[5] Recent station renovations included improvements such as new walkways and a tunnel for pedestrian access to new platforms[6] which have canopies rather than shelters, and expansion of the parking lot.

The previous basic brick building has also been replaced by a new structure which offers improved facilities.