With the resumption of services in 1955, all traffic on the line has been controlled from an office in Harbour station, known simply as "Control". With the exception of some early morning and late night movements by works trains, this office is staffed constantly when passenger-carrying services are in operation. Its remit was expanded in 1997 with the commencement of public services on the Welsh Highland Railway between Caernarfon and Dinas and its subsequent expansion south towards Porthmadog. Additionally, for 2007 and 2008, when a connection was in use with the
WHR(P), there was a requirement to coordinate with its operations on the new main line. From 2011, with the WHR now connected to the station via the CTRL, a new short platform and point work was added to the eastward side of the existing platform structure/Spooners Bar. This being too short to hold the longer WHR trains, WHR trains were pulled onto the Cob; then a pilot locomotive was attached to the rear to drag the complete WHR train into the station. This operation was reversed on departure, and because of the need for both lines to use the Cob and the single platform, only one train could be in the station at any time. This was always a temporary solution, until funds could be found to rebuild the station. Having foreseen this problem, the FR proposed a £1.3M rebuild of Harbour Station, to provide two separate and individually controllable platforms, each with their own run-round loops. The project took three years to complete, requiring extension of the Cob structure into the
Irish Sea, compacting, extension of the platform, and finally a shift westwards of the alignment of the existing single platform and FR storage loops and sidings. A helpful grant from the Terminal Stations Improvement Scheme was arranged by the Welsh Government. Completed in March 2014 within the projected cost, the project delivered, as well as two platforms, a new electronically controlled signal box with a distinct FR heritage appearance. The signalling work won the Signalling Award at the 2014
National Railway Heritage Awards. == Services ==