All of the Amtrak trains that terminate at Penn Station New York go over to Suunyside Yard in Queens where they are run around the loop and then serviced prior to their next departure from Penn Station.
The two daily Amtrak trains that terminate at Niagara Falls NY are turned on a wye a few miles south of Niagara Falls, while occupied, and then they are backed the last few miles into stub-end tracks at the Niagara Falls station, where they terminate.
When Amtrak's Adirondack arrives at Central Station in Montreal, it normally pulls straight into the station, unloads and is backed out to the yard (Via's MMC). It can be turned prior to its departure the next morning. However, if it has a private car that is going to be parked inside the station, then the (occupied) train 69 is turned on a wye near the station and backed into the station; this allows the crew to unload train 69 in the station, spot the PV in the proper location, cutaway from the PV and deadhead the consist out to the yard at Via's MMC.
There is a wye at Richmond and at Newport News for turning trains that terminate at those two stations.
There is a wye right near the passenger station in Rutland VT that is used for turning the Ethan Allen train after it has arrived and offloaded at Rutland.
There is a wye (location named ATANDO) at Charlotte NC, located a ways north of the station. The last time I had MOUNT VERNON on The Carolinian, the crew came on duty early in the morning at Charlotte and turned train 79's equipment into train 80 using the ATANDO wye. I will speculate that the Piedmont trains are also turned on the ATANDO wye at Charlotte.
When I took MOUNT VERNON to Halifax, Nova Scotia, Canada in 2004, Via turned the entire consist of The Ocean on a loop ("balloon") track at the intermodal ocean shipping terminal at the Port of Halifax, after the train arrived and offloaded at their Halifax station.
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