NYG&B [New York Genealogists and Biography Society] labs offers a Record Map Search This new tool allows you to search an index of articles in The Record and view the New York State locations related to the results returned by your search.
NYPL U.S. Local History and Genealogy Division The Irma and Paul Milstein Division of United States History, Local History and Genealogy collects publications documenting American history on the national, state, and local levels, including extensive holdings on New York City history. The Division has a renowned collection of family histories and other genealogical collections, with a particular focus on the New York region. See especially their Selected Genealogy Resources and Vital Records Guide.
Reclaim the Records is a not-for-profit activist group of genealogists, historians, researchers, and open government advocates. They identify important genealogical records sets using FOIA, open data laws, litigation and perseverance and when successful post these records on their website. Including NYC Marriage License Records from 1908-1929 and 1930- 1995,
New York State Library & Archives is in Albany, NY They have a Guide to their Genealogical Resources
The N-YHS has the Records of the Children's Aid Society of New York
The Mss Division of NYPL holds the Records of the NorthSide Center for Child Development.
The NY State Archives holds the records of the NY House of Refuge
NYPL Blog Researching Orphans in Geneology
Crime, Punishment and Popular Culture,1790-1920 database [JJay login required] has many first hand accounts of orphans and children, some were caught up in criminal enterprises. These can also be found by Searching "Orphans" in CUNY+ keyword in subject
Holt, Marilyn Irvin (1992) The orphan trains: placing out in America. Stacks - HV985 .H65 1992