Pre-Schengen, Padborg was where there was a large-scale checking of travelers passports, visas and / or other identity documents but this has disappeared after 2001 when Denmark became an active part of the Schengen Area.

During COVID-19 pandemic, fairly much checks of border crossing certificates and vaccination documentation took place, although with more limited number of passengers.

Passenger traffic has especially gained momentum after EuroCity and EuroNight lines was created and developed.

2019–2028 the Vogelfluglinie is closed for rail traffic, so all trains between Copenhagen and Hamburg goes through Padborg.

The extensive station building has no booking office (self-service ticket machines available) but has a waiting room and toilet facilities.