[2] With the adjacent Kennedy GO station on the Stouffville line of GO Transit, Kennedy is an intermodal transit hub and the fifth busiest station in the system, after Bloor–Yonge, St. George, Sheppard–Yonge, and Union, serving a total of approximately 42881 customer trips a day.

[3] Kennedy station was previously the southern terminus of Line 3 Scarborough before it was permanently closed on July 24, 2023.

Trains of the former Line 3 Scarborough previously ascended via a bridge to the platform located at the top level of the station complex.

Three satellite pedestrian entrances to the station can be found at the South Parking Lot, next to the Don Montgomery Community Centre, and the passenger pick-up and drop-off roundabout on Transway Crescent.

(A fourth entrance, at the service road of Eglinton Avenue, was demolished in 2018 and no longer exists.)

Below the ground level is the concourse that spans the length of the station, connecting to all pedestrian entrances.

The station platform was reduced to a single track and began using the Spanish solution of unloading and boarding passengers at Kennedy.

Original floor finishing and platform edge markings for the planned light rail can also be seen along the current tracks.

Kennedy station used to feature a mural titled A Sense of Place by artist Frank Perna.

[15] As of February 18, 2024, bus bays 6 through 10 are closed for construction related to the Scarborough Subway Extension.