Forested riparian zones adjacent to headwater streams provide unique habitat attributes and influence water quantity and quality. Forest harvesting adjacent to and within these zones has led to changes in stream temperature (Ts) and impacts on aquatic ecosystems. As such, policies and regulations have sought to limit forest management activities in riparian zones; however, water temperature responses have been variable, necessitating additional research to improve our understanding of the effectiveness of contemporary riparian harvesting prescriptions in limiting water temperature increases after harvest. We sought to quantify the effects of three different riparian buffer prescriptions with increasing intensity of basal area removal (2–43% area harvested) on Ts in forested headwaters in northern California, USA. We measured Ts in 18 headwater catchments (12 harvested, 6 six unharvested references) during a pre-harvest year and two post-harvest years using 12 thermistors distributed longitudinally down each stream (i.e., 216 total sensors). We analyzed the Ts data to assess (1) the seasonal variability of seven-day moving average of daily maximum stream temperature (T7-day-max) and (2) the relative importance of the different harvesting prescriptions and catchment physiographic characteristics in influencing the T7-day-max. Our analysis indicated substantial changes in basal area and shade in the riparian areas with the most intensive harvesting treatment (i.e., 50% reduction in canopy cover). However, these changes in riparian canopy were poorly related to stream temperature. Results indicated a median T7-day-max increase of ∼ 2 °C in the sites with the most intensive harvesting treatment. The greatest changes in seasonal T7-day-max occurred during the summer and fall but only during the first year after harvesting. There was no evidence of increases in T7-day-max during the second post-harvest year. While air temperatures in the riparian areas increased by 1–5 °C after harvesting, this warming did not directly transfer to strong warming in stream temperatures. Rather, random forest models revealed that T7-day-max was more strongly related to topography (i.e., elevation) and climatic variability (i.e., changes in precipitation and stream stage) than to the riparian harvesting prescription or the harvesting period. Our study further highlights the challenges in understanding the thermal regimes of headwater streams and their responses to forest disturbances. Predictions of stream temperature responses to forest disturbances are complicated by the heterogeneity of the factors that influence this important physical water quality parameter. However, with global climate change and increasing pressures on water resources and aquatic ecosystems it is increasingly important to continue to provide insights into the relationships between forest management activities and the thermal regimes of headwater streams.