Objective Water born disease is one of the major public health problems throughout the world. Drinking unsafe water is one of the front risk factor for the occurrence of waterborne diseases particularly in sub-Saharan African countries including Ethiopia. This study aims to assess household water treatment practice in Endamehoni district, northern Ethiopia. Results Practicing house hold water treatment was 47.0% (95% CI: 43.3–50.5). Being young age [AOR = 2.22; 95% CI: (1.93–13.01)], female [AOR = 3.9; 95% CI: (2.45–6.32), married marital status [AOR = 2.1; 95% CI: (0.84–11.10)], Secondary and above educational level[AOR = 2.2; 95% CI: (1.87–11.45)] and get unimproved source of drinking water [AOR = 6.8; 95% CI: (3.35–12.59)] were significantly associated with household water treatment practice. Water treatment at house hold level is low. Providing community based health education and providing improved water source may improve house hold water treatment practice.