Qaidam root voles live in caves, which are relatively simple and mostly have a single entrance. They build their nests under haystacks, grass roots, and tree roots. Some individuals build outer nests. They feed on the green parts of plants, and in winter they dig up roots, tuber sprouts, and seeds of plants. They live a diurnal lifestyle. Their natural enemies are mainly weasels, foxes, wolves, and birds of prey.
Root voles breed between summer and autumn. It reproduces 3-4 times a year. In the Qilian Mountains, most adult female mice caught in July and August are pregnant. Each litter usually has 3-9 pups, with an average of 5.
This species is a carrier of the plague virus.
Listed in the 2008 Red List of Endangered Species of the World Conservation Union (IUCN) ver3.1 - Least Concern (LC).