Jalthal Forest (62.6 km2) is a remnant forest patch of a once continuous, lush and dense area of sal Shorea robusta and mixed deciduous vegetation in eastern lowland Nepal that is now surrounded by a dense human population. The forest is one of the last remnants of suitable habitat for the Critically Endangered yellow-headed tortoise Indotestudo elongata. This study explored the distribution of and conservation threats facing the yellow-headed tortoise in Jalthal Forest through field surveys in 20 community forests and structured interviews with 80 members of 22 community forest user groups and local people during September–November 2021. We surveyed 11.3 km2 of the forest and observed only four individuals of I. elongata, indicating a population density of 0.35/km2. Local people perceived that the species is decreasing mainly because of hunting (42%) and habitat deterioration from incursion of invasive species (30%). Based on the interviews with local people involved in hunting, an annual mean of 6.8 tortoises were killed during 2017–2021. The purposes of hunting were consumption (70%) and ethnomedicinal uses (30%) by the Meche and Sathar communities. Awareness campaigns and networks of communication amongst all stakeholders are required to conserve this species in Jalthal Forest.