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The NPR article appears to be a compilation of interviews (performed by the author and other media sources) with pertinent individuals (public health officials, economics experts) and research from agency reports (US Accountability Office, Institute for Justice and Democracy in Haiti). 

This article was meant to highlight the gaps in data available for violence against health care/aid workers in unsecured areas. As such, a large portion of the methods segment is dedicated to discussing the difficulties in locating this data and any patterns in data gaps. The primary method of collection, it appears, was through an initial search for peer-reviewed work that transformed into an accumulation of accounts from media, documentary, and editorial reports. It should be noted that some data is available from various organizations, regarding their specific statistics; however, this mainly tends to focus on larger incidents, such as kidnappings and deaths (as mentioned in the paper). There is also some information available through Aid Workers Security Database, but shortcomings in this area are also heavily noted.

Several leaders from various New York State agencies convened to outline plans for this policy. This included Governor Andrew M Cuomo, State Health Commissioner Dr. Howard Zucker, State Police Superintendent Joseph D'Amico, Port Authority Executive Director Pat Foye, and representatives from health care centers and agencies around the state.

The article contains quotations attributed directly to the judge, so I would presume she was either present for the ruling or accessed the case brief. This would also be where Ms. Preston could obtain direct quotations from the plantiff's arguments. Additionally, the article includes statements from the EPA, public officials, and Senator Rodham Clinton; these would either be from official public releases or interviews by government personel.