[1] Arlesey is managed by Great Northern, but from December 2019 all services to the station have been operated by Thameslink, due to significant rebranding across their network.

Due to declining receipts, both Arlesey and nearby Three Counties stations were closed to passengers on 5 January 1959, with goods services being withdrawn on 28 November 1960.

Only prompt action by the signalman at Arlesey averted a major disaster, as he was able to stop a Cleethorpes – London King's Cross express passenger train in time to prevent it crashing headlong into the wagons, when the latter were still moving.

[7][8] A similar incident occurred in July 1954, when a King's Cross – Aberdeen service was halted by the signalman at Three Counties before it could plough into the wreckage of a goods train, which had become derailed to the south of the station.

The rebuilt station was designed to be fully accessible to wheelchairs but was initially unusable by those who could not leave their chair as there were no facilities for 'loading and unloading'.

Queen Elizabeth II, accompanied by Prince Philip, Duke of Edinburgh, visited the station on 17 November 2006, after arriving on the Royal Train.