A holistic landscape approach to cultural resource analysis of a set of archaeological sites in the central Penobscot Valley led to inferences regarding the Holocene physical and biological environmental context. Targeted environmental studies include (1) examination of forest and wetland changes through time and (2) lake-level studies as a key to paleohydrology. These studies were combined with broad-scale geomorphic investigations and detailed stratigraphic analyses, and studies of archaeological sites and their artifact assemblages. Together, these studies provide a picture of dramatic changes to the physical and vegetational landscape. These included reestablishment of a major river following deglaciation, evolution of extensive lakes to uplands and peatlands, and a shifting mosaic of open and closed forest composed of a variety of hardwood and softwood species. Inferences based on buried soils exposed in archaeological excavations supported climatic interpretations based on vegetation and paleohydrology. As a result, this work allowed evaluation of (1) site formation and preservation processes and (2) occupational patterns. Site formation and preservation of Early Holocene sites can be linked to sedimentation by hydraulic damming upstream of rapids at the mouths of tributary streams. Shifting human land use reflected by changes in occupation patterns appears to correspond to changes in forest composition as well as wetland and stream evolution through time.