Mukilteo station consists of a two side platforms, connected by a covered pedestrian overpass, sited along the BNSF Railway's Scenic Subdivision between Seattle and Everett.

The station, located one block east of the Mukilteo ferry terminal on State Route 525, contains a 63-space park and ride lot with a drop-off area that is accessible through an entrance/exit from Front Street; the platform also houses a ticket vending machine and ORCA card readers.

[9][10] Mukilteo station was formerly the terminus of express buses serving the Boeing Everett Factory, Downtown Seattle, and the University of Washington that were eliminated in service restructures in the 2020s.

[16] Work on the station was put on hold until the completion of a second track through the area, though Sound Transit did consider building a temporary platform to boost ridership on the North Line.

[17] A groundbreaking ceremony was held in August 2007 for the initial phase of the project, the northern side platform, as part of a multimodal transit hub built in conjunction with a new Mukilteo ferry terminal.