Below are links I frequently use while researching in New York. The list began after a webinar I did for the New York Genealogical and Biographical Society (12 October 2017).  It became a small virtual reference library.

French’s 1860  Gazetteer of the State of New York
1824 New York State Gazetteer
Onondaga’s Centennial v1 
Onondaga’s Centennial v2
The Ballotting Book  and other documents relating to military bounty lands in the State of New York. 1825
Historical article about Onondaga County by Paul Paine  (Includes table of contents)
Guide to vital statistics records of churches v1
Guide to vital statistics records of churches v2
Researching in Syracuse  
 (article)

Maps:
New York Maps showing the military tract lots:
1792/3 Map of New York with the military tract by Simeon Dewitt
1812  Map of the nothern part of the state of New York  surveyed by Amos Lay
Other New York Maps:
French’s 1859 Onondaga County Map
1852 Onondaga County Map

New York Naturalization Records:
Immigration and naturalization records Onondaga County, 1802-1859 v1
Immigration and naturalization Onondaga County records, 1802-1859 v2
Transcription projects include naturalization, probate, deeds and other records.  Sampubco.com
Family Search,   New York, County Naturalization Records, 1791-1980  Allows you to search these records, or browse them; it is recommended that you do both.