The property also will be taken off the tax rolls, resulting in a $17,000 a year loss to the Hudson Valley town about 70 miles north of the city.
MTA spokesman Kevin Ortiz says the agency is working to acquire the property, where it will train its dog police force.
Ortiz says the K-9 unit has played a "vital role" in post-Sept. 11 security efforts.
The transit agency operates the metro area's subways, buses and commuter rail.