Hagenkotter, 34, was an inmate at the Riverside Correctional Facility before he made his escape on November 30.
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He was in custody for retail thefts.
Officials said Hagenkotter fled the facility while working a detail assignment in the orchard behind the Philadelphia Industrial Correctional Facility.
Authorities found Hagenkotter's body at approximately 2:30 p.m. Monday after responding to reports of a male who was discovered unresponsive in a warehouse on the 1100 block of East Venango Street.
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First responders pronounced Hagenkotter dead at the scene.
According to the Philadelphia Department of Public Health, Hagenkotter died from a drug overdose and the manner of death has been ruled an accident.
Authorities say there was a broken air vent and a pushed-out fan in the warehouse, which may suggest a forced entry. Additionally, police say a ladder was found nearby.
Hagenkotter initially did not have any identification on him when his body was discovered. Authorities say they identified him through fingerprint analysis.