The two hospitals have been formally affiliated since 2008, as recommended by the Berger Commission Report issued by New York State Department of Health in 2006.

[10] In June 2020, Stony Brook University Hospital was the site of a bomb threat when 33-year-old Robert Roden walked into the emergency room armed with three explosive devices, a pellet gun and a hatchet; an FBI search of his house discovered Roden's bedroom was booby-trapped with explosives and contained numerous AR-15s.

[11][12] The Renaissance School of Medicine at Stony Brook University is responsible for the preclinical and clinical education of medical students (current enrollment: 450).

As the only School of Medicine in the region, it offers excellent research and clinical opportunities and has attracted a faculty of national and international renown.

[13] Designed by noted Chicago architect Bertrand Goldberg, construction on the complex began in 1976, and the smallest building, the Basic Sciences Health Tower, was completed that year.

The complex of three buildings is located on the "East Campus", and is separated from the rest of Stony Brook University by Nicolls Road.

It includes a new wing, which houses the Woman and Infants Center, an expanded Emergency Department and a Surgical Suite with an OR Pharmacy.

[15] Located a short walk away from SBUH is the Center for Outpatient Services at Stony Brook University, which opened its doors in March 2007.

The hospital provides comprehensive pediatric specialties and subspecialties to infants, children, teens, and young adults aged 0–21[17][18][19] and beyond[20] throughout the Long Island region.

[22] In 2017, the hospital was verified as a Level 1 Pediatric Trauma Center by the American College of Surgeons after meeting the stringent requirements.