The order came two days after prosecutors announced they would not bring criminal charges against Bostian.
He also is charged with eight counts on involuntary manslaughter, a first-degree misdemeanor, and "numerous" charges of reckless endangerment, a second-degree misdemeanor, Pennsylvania Attorney General Josh Shapiro said Friday.
The family of a NY woman who was killed sought the criminal complaint after city prosecutors declined to press charges.
Kline said the attorney general on Friday "correctly and appropriately charged Brandon Bostian for his reckless disregard of the passengers in whose safety he was entrusted".
Philadelphia prosecutors had earlier declined to charge Bostian, citing insufficient evidence.
Criminal charges were filed Friday against a USA passenger train driver for the 2015 derailment in Philadelphia that killed eight people and injured more than 200. Kline represents the family of the NY victim, Rachel Jacobs, a 39-year-old technology executive, wife and mother.
On Thursday afternoon, attorneys Richard A. Sprague, Thomas R. Kline and Robert J. Mongeluzzi, who represent many victims of this incident, held a news conference at their Center City office, where they applauded Judge Neifield's decision. Bostian's attorney did not return messages this week seeking comment.
Amtrak has already taken civil responsibility for the crash and agreed to pay $265 million in claims.
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The district attorney's office said evidence indicated the derailment was caused by the engineer operating the train far in excess of the speed limit, but it found no evidence that he acted with criminal intent.
Bostian, in a lawsuit against Amtrak, said he was left disoriented or unconscious when something struck his train before it derailed.
Train engineer Bostian told federal investigators that he had been listening to the radio and became distracted by a report about a train engineer who was sprayed with glass from a windshield that had been struck by an object.
Private criminal complaints are occasionally used in low-level crimes not witnessed by police or, sometimes, when charges are not filed for political reasons, experts said.
A Philadelphia judge has ordered two private criminal complaints be filed in the deadly Amtrak train derailment there, a day after prosecutors decided not to charge the operator.
The New York-bound Amtrak 188 entered the curve going more than double the speed limit, flinging multiple train cars free from the tracks and tearing up some of the railway's I-beams.
NTSB Recorder Specialist Cassandra Johnson works with officials on the scene of the Amtrak Train 188 Derailment in Philadelphia, Pennsylvania on May 13, 2015.