The Croton-Harmon station divides the two segments of the line. South of there, it is electrified, with a third rail, where it serves suburban stations located more closely together. Most of the electrified zone is served by four tracks, usually two express and two local tracks in each direction. In some sections, there are only three tracks.
North of Croton-Harmon, the line is mostly double-tracked, with a few three-track areas. The diesel trains that run to the more separated stops between Croton-Harmon and Poughkeepsie are generally express routes that skip most of the lower stations. From just north of Spuyten Duyvil to the end of the line, the Hudson Line is shared with Amtrak's various routes up the river.
Metro-North is planning to build a new station to handle traffic for the new Yankee Stadium, which is projected to open in 2009.
Since the tracks continue north of Poughkeepsie, there have, over the years, been various proposals from both the MTA (Metro-North's parent agency), to extend service northwards. Most have been scotched after strong opposition from residents of northern Dutchess County, who fear the effect on their still largely-rural communities that being within an easy rail commute of midtown Manhattan would have. However, Poughkeepsie-area commuters have supported such plans since they would ease pressure on that station. As recently as January 2007, supervisors of some towns north of Poughkeepsie have expressed new interest in extending rail service.
|New York||Manhattan||0.0||Grand Central Terminal||NYC Transit: 4, 5, 6, 7, 42 Street Shuttle, M42, M101, M102, M103, M104|
|4.2||Harlem-125th Street||NYC Transit: 4, 5, 6, M60, M100, M101, Bx15|
|Bronx||8.1||Morris Heights||NYC Transit: Bx18, Bx40, Bx42|
|8.7||University Heights||NYC Transit: Bx12|
|9.8||Marble Hill||NYC Transit: 1, Bx7, Bx9, Bx20|
|11.1||Spuyten Duyvil||Hudson Rail Link|
|13.0||Riverdale||Hudson Rail Link|
|Bronx/Westchester County border|
|15.1||Yonkers||Bee-Line: 6, 9, 25, 32|
|Dobbs Ferry||20.7||Dobbs Ferry||Bee-Line: 66|
|Tarrytown||25.2||Tarrytown||Tappan Zee Express, Bee-Line: 1T, 13, T|
|Sleepy Hollow||26.5||Philipse Manor|
|Ossining||30.8||Ossining||Haverstraw-Ossining Ferry, Bee-Line: 13, 19|
|Croton-on-Hudson||33.2||Croton-Harmon||Bee-Line: 10, 11, 14|
|Electrified rail ends northbound, begins southbound|
|Cortlandt Manor||38.4||Cortlandt||Bee-Line: 14|
|Peekskill||41.2||Peekskill||Bee-Line: 16, 18|
|Westchester County/Putnam County border|
|Cold Spring||52.5||Cold Spring|
|Putnam County/Dutchess County border|
|Town of Fishkill||55.0||Breakneck Ridge|
|Beacon||59.0||Beacon|| Dutchess LOOP: 3, 3B, 41 Newburgh-Beacon Shuttle, |
|New Hamburg||65.0||New Hamburg||Dutchess LOOP: 31, 32|
|Poughkeepsie||73.5||Poughkeepsie|| Dutchess LOOP: 11, 12, 21, 22, City of Poughkeepsie Transit|
|Line continues northward as CSX's Hudson Subdivision|
A new Yankee Stadium Station is planned south of University Heights. Between University Heights and Marble Hill, a spur of track, all that remains at this end of the "Old Put", splits off to the north. It is used by the commuter railroad for storage and repair of maintenance-of-way vehicles.
Marble Hill, technically in Manhattan despite being on the mainland, is an express stop and sees quite a bit of traffic since it offers an easy transfer to the IRT Broadway–Seventh Avenue Line of the New York City Subway at the Marble Hill–225th Street station. The subway is elevated over Broadway at this point. With the MNRR tracks down by the river requiring those detraining to climb stairs to street level, it is a rare instance where a commuter rail line is below a subway in elevation at a station or station where transfers are possible.
A short curve away brings the trains to Spuyten Duyvil and its far lengther stairs to the street. Just past the station, the track rejoins the original Hudson River Railroad, shared with Amtrak, and after one more stop at Riverdale is out of the city.
The Palisades present themselves across the river as trains pass through the city of Yonkers and its four stops, mostly local. Some express trains do stop at the recently-renovated Yonkers station, the first where a transfer to Amtrak (northbound only) is possible.
Smaller, local-only suburban stations are passed as the Tappan Zee Bridge looms to the north and the river widens. Finally, between Ardsley and Tarrytown, it passes overhead. Rockland County fades to almost three miles (4.8 km) away across Haverstraw Bay. But after passing through Sing Sing prison, the train reaches Ossining, where a ferry brings travelers across the wide river.
Electric trains end their runs one stop beyond, at Croton-Harmon, a sprawling, modern terminal shared again with Amtrak just south of Harmon Yard and east of Croton Point. The tracks veer inland, closely following US 9, to the next and newest stop, Cortlandt, the only non-New York City station on the line where the Hudson River cannot be seen.
The Dutchess County line is crossed in a pair of 842-foot (257 m) tunnels under Breakneck Ridge at Breakneck Point; across the river Storm King looms. The Breakneck Ridge flag stop marks the end of the Highlands as the river once again broadens around Newburgh Bay. At Beacon, a stop that has become more popular since the opening of the art museum nearby, ferry service is available during peak hours to Newburgh, whose skyline dominates the view across the river, and shortly after leaving the train passes under the Newburgh-Beacon Bridge.
Just upriver is New Hamburg, a hamlet of the Town of Poughkeepsie and a station closed in the NYCRR days but eventually reopened. The last 8.5 miles to Poughkeepsie's ornate, recently renovated station, highlighted by the vast Tilcon quarry, is the longest distance between any two stations on a Metro-North main line.
The Genesises are mostly in Metro-North's sedate silver-and-blue colors, but sometimes the more striking red, black and white scheme inherited from the New York and New Haven Railroad can be seen as equipment on the line is pooled with ConnDOT, whose red-striped passenger coaches are also in wide use on the Hudson Line. The Genesises will receive a new paint scheme this year.