The health system's logo, a silhouette of the former president, appears alongside the station's name in most locations.

During construction in May 1984, the tunnel suffered minor damage due to an above-ground fire in an abandoned building on 10th Street.

When the convention center first opened in 1993,[9] a new entrance to the station was built into the Reading Terminal headhouse at the northeast corner of 12th and Market streets.

[10][11] The new corridor would be built with fewer curves, allowing for trains to achieve much higher speeds and eventually reach the goal of a 37-minute trip between Philadelphia and New York Penn Station.

[18] Jefferson Station is located adjacent to multiple surface bus routes operated by both SEPTA and NJ Transit.

Each 850-foot (260 m) platform, long enough for ten railcars, is divided into "A" and "B" sections so that two different Regional Rail trains may utilize the same track at the same time.

To the east, there is a sharp curve north where trains are limited to about 20 to 25 mph (32 to 40 km/h), and then another set of cross-overs before climbing a 2.5% incline towards the elevated Temple University station.