In this study, the geochemistry and origin of natural gas and formation waters in Devonian age organic-rich shales and reservoir sandstones across the northern Appalachian Basin margin (western New York, eastern Ohio, northwestern Pennsylvania, and eastern Kentucky) were investigated. Additional samples were collected from Mississippian Berea Sandstone, Silurian Medina Sandstone and Ordovician Trenton/Black River Group oil and gas wells for comparison. Dissolved gases in shallow groundwaters in Devonian organic-rich shales along Lake Erie contain detectable CH 4 (0.01–50.55 mol%) with low δ 13 C–CH 4 values (−74.68 to −57.86‰) and no higher chain hydrocarbons, characteristics typical of microbial gas. Nevertheless, these groundwaters have only moderate alkalinity (1.14–8.72 meq/kg) and relatively low δ 13 C values of dissolved inorganic C (DIC) (−24.8 to −0.6‰), suggesting that microbial methanogenesis is limited. The majority of natural gases in Devonian organic-rich shales and sandstones at depth (>168 m) in the northern Appalachian Basin have a low CH 4 to ethane and propane ratios (3–35 mol%; C 1 /C 2 + C 3 ) and high δ 13 C and δD values of CH 4 (−53.35 to −40.24‰, and −315.0 to −174.6‰, respectively), which increase in depth, reservoir age and thermal maturity; the molecular and isotopic signature of these gases show that CH 4 was generated via thermogenic processes. Despite this, the geochemistry of co-produced brines shows evidence for microbial activity. High δ 13 C values of DIC (>+10‰), slightly elevated alkalinity (up to 12.01 meq/kg) and low SO 4 values (<1 mmole/L) in select Devonian organic-rich shale and sandstone formation water samples suggest the presence of methanogenesis, while low δ 13 C–DIC values (<−22‰) and relatively high SO 4 concentrations (up to 12.31 mmole/L) in many brine samples point to SO 4 reduction, which likely limits microbial CH 4 generation in the Appalachian Basin. Together the formation water and gas results suggest that the vast majority of CH 4 in the Devonian organic-rich shales and sandstones across the northern Appalachian Basin margin is thermogenic in origin. Small accumulations of microbial CH 4 are present at shallow depths along Lake Erie and in western NY.