A new two-story station will be built beneath the Main Train Station building as part of the Prague Railway Junction.

The Railway Administration presented the future design of the new tracks in the Prague Railway Junction to the public. Based on a feasibility study, the Central Commission of the Ministry of Transport selected the option featuring two separate routes in tunnels and a two-story central station beneath the Main Railway Station.

Suburban trains in the capital are being used by an increasing number of passengers. This must also be taken into account when planning additional rail lines. Several years ago, the Railway Administration therefore commissioned a feasibility study to address the future design of the Prague Railway Junction.

The Central Commission of the Ministry of Transport selected the most suitable option, under which two tunnel routes totaling 10.6 kilometers in length and five new stations will be built in the center of Prague. The tunnels will intersect on two levels at the central station beneath the Main Railway Station. One will run beneath the existing underpasses to the platforms, while the other will be one level lower. Both parts of the station will be connected by a tunnel with escalators; the concourses will be located on Winston Churchill Square and in the new departure hall of the Main Railway Station.

Each tunnel will have a capacity of up to 16 trains per hour in each direction. Underground stations will be built in Karlín, on Wenceslas Square, and on Charles Square, as well as a partially underground station at Florenc. The new routes will help separate long-distance and regional transport. This will maintain travel comfort while minimizing the environmental impact. The estimated total cost of this option is CZK 185 billion.

The approved plan will now be incorporated into strategic transportation plans; during its preparation, the Railway Administration will collaborate with state institutions and local governments. Adjustments will also be made to the Principles of Territorial Development and Land Use Plans. The project will provide new rail capacity right in the city center, including several stations that will shorten walking distances for passengers. The result will be not only greater appeal for rail transit but also relief for the busiest public transit routes in the city center. At the same time, the expanded rail network will divert some traffic off the roads. Fewer cars in the city mean lower emissions, less noise, and a significant improvement in the environment.

The feasibility study for the Prague Railway Junction examined three basic proposals and, additionally, two modifications to one of them. One alternative option included two large stations beneath the Main Railway Station and Wenceslas Square; between them, trains would use a shared four-track section. The second proposed a single central station named Opera. The original design of the selected option was based on faster service with fewer stops.

Construction of the Prague Railway Junction project is planned for the years 2035–2047.