Sediment diatom and chemical analyses of cores from three poorly buffered extra-glacial lakes on the northeastern margin of the Canadian Shield (Cumberland Peninsula, Baffin Island) record interactions between aquatic and terrestrial spheres that were influenced by late Quaternary climatic conditions. Although differences exist between each of the lakes, notably with regards to the intensity of pre-Holocene catchment erosion and the timing of the onset of organic sedimentation, an underlying pattern of lake ontogeny, common to all three lakes, is identified. Although intensified watershed erosion characterized the Late Wisconsinan and Neoglacial cold periods, the lakes nonetheless remained viable ecosystems at these times. Sudden catchment stabilization during the late-glacial to earliest Holocene is associated with incipient organic sedimentation. Lake-water pH increased at this time, likely in response both longer base cation residence times as lake flushing rates decreased, and enhanced alkalinity production from sediment biogeochemical reactions. Subsequently, as the catchments remained stable during the productive early Holocene (c. 9-7 ka B P), then gradually received a renewed increase of minerogenic sedimentation, the breakdown of sources of lake alkalinity resulted in natural acidification. Burial of cation-rich mineral sediments and the loss of permanent sedimentary sinks for the products of microbial reduction likely impeded within-lake alkalinity production, and catchment-derived base cations appeared ineffective in curtailing pH declines. The general nature of the Holocene development of these lakes is similar to that observed elsewhere on crystalline terrains, following deglaciation. Our data therefore suggest that catchment glaciation is not a necessary precursor for models of lake development characterized by initial base cation enrichment and subsequent gradual acidification.