State Police sergeant James Lobdell said, Tuesday that the children were being transferred from Massena Memorial Hospital.
"They were stabilized for transport, and sent to Syracuse for treatment of the injuries. And as of this morning, we made contact with the hospital and were advised that the two children are still listed in critical condition."
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One woman injured in the buggy is also now at Upstate University Hospital in Syracuse.
The Watertown Daily Times reports that the driver of the FedEx truck has been identified as 28-year old Robert Williams of Gouverneur.
Sergaent Lobdell says police are still investigating the accident but it appears the Fedex truck was switching from the left into the right lane when it hit the buggy.
Williams was not hurt. But troopers say four Amish children and two adults were thrown from the buggy. Lobdell was not sure yesterday whether any criminal charges would be filed.