Multiple generations of spring-fed streams traversed ∼800 km² of the Las Vegas Valley in southern Nevada between ca. 10.9 ka and 8.5 ka, depositing an extensive tufa network. The scale of this network and diversity of tufa morphologies is novel in North America and offers an opportunity to obtain quantitative paleoclimate data for the region during the early Holocene. We determined isotopic compositions and estimated past temperatures using clumped isotope data from early Holocene tufa on the valley floor (698 m) as well as tufa forming today at higher elevation in the nearby Spring Mountains at Cold Creek Spring (1856 m). Modern and fossil tufa yielded comparably low δ¹⁸O values, implying that source waters for both were derived from high-elevation winter precipitation. Clumped isotope temperatures of modern tufa average 15.8 ± 2.5 °C, aligning with mean summer temperatures of the emergent spring water, and indicate equilibrium conditions of tufa formation. The early Holocene tufa yielded similar clumped isotope temperatures, averaging 15.2 ± 3.9 °C, meaning it precipitated at temperatures that occur at much higher elevations today. The Las Vegas tufa record, combined with nearby and temporally correlative paleospring and lacustrine records, suggest that cool/wet conditions prevailed throughout the Mojave Desert during the early Holocene. These records also demonstrate that spring ecosystems responded to millennial-scale hydroclimate variations that supersede climate change driven solely by insolation. The previously unrecognized pattern of ecosystem response to hydroclimate documented here may assist in understanding climate drivers for the early Holocene and provide critical information for the fate of groundwater-dependent ecosystems in the southwestern United States.