The Khmer kingdom, whose capital was at Angkor from the 9(th) to the 14(th)-15(th) century, was founded in 802 by king Jayavarman II in a city called Mahandraparvata, on Phnom Kulen. Virtually nothing more is known of Mahandraparvata from the epigraphic sources, but systematic archaeological survey and excavation have identified an array of cultural features that point to a more extensive and enduring settlement than the historical record indicates. Recent remote sensing data have revolutionized our view, revealing the remains of a city with a complex and spatially extensive network of urban infrastructure. Here, we present a record of vegetation change and soil erosion from within that urban network, dating from the 8(th) century CE. Our findings indicate approximately 400 years of intensive land use, punctuated by discrete periods of intense erosion beginning in the mid 9(th) century and ending in the late 11(th) century. A marked change in water management practices is apparent from the 12(th) century CE, with implications for water supply to Angkor itself. This is the first indication that settlement on Mahendraparvata was not only extensive, but also intensive and enduring, with a marked environmental impact.