The COLOSS research association has been assessing honey bee colony losses, associated risk factors and management, focusing on Western countries but with a progressive international expansion. Here, we report the first survey on the loss rates of colonies in 2022/2023 in Ethiopia using COLOSS monitoring survey tools. A face-to-face interview questionnaire survey was conducted on 64 beekeepers selected from Oromia and Tigray regions. This covered 1713 honey bee colonies distributed in 68 apiaries. The percentages of colonies lost were significantly different between Oromia (24.1%) and Tigray (66.4%) regions. Colony losses were attributed as unsolvable queen problems (8% in Oromia; 10% in Tigray), natural disaster (32%; 82%), and empty hives or dead colonies (60%; 8%). The loss rate was significantly affected by queen replacement (p < 0.0001), use of natural comb (p < 0.0001), feed supplementation (p < 0.0001), region (p < 0.0001), varroa treatment (p < 0.0001), colony splitting (p < 0.01), and merging (p < 0.01). Beekeepers in Oromia managed more colonies and implemented improved practices compared to those in Tigray. However, all beekeepers in Oromia detected at least some bees with signs of deformed wing virus, compared to 76% of beekeepers in Tigray. In conclusion, the colony loss rate was significantly different between Oromia and Tigray regions due to differences in natural disasters, management, environment and health factors.