The author shows how pollen and oribatid mites recovered from the small lake of Marcacocha provide a detailed proxy record of agro-pastoralism over the last 4200 years in the central Andes. The introduction of highland maize and weeding practices 2700 years ago corresponds with major settlement development, as well as evidence for large herds of llamas not only facilitating trade but supplying abundant fertilizer and fuel in the form of excrement. Prolonged droughts and pre-Colombian epidemics probably influenced many of the social changes observed.