The study is aimed at analyzing the risk of Taita Hills region of harmful runoff and soil erosion by employing morphometric analysis and change detection in a GIS environment to prioritize the Taita Hills in Taita Taveta County. The objective of the study was to characterize and give hierarchy in which the region should be conserved. The methodology adopted hydrological modeling, morphometric computation, Weighted Sum Analysis (WSA) and change detection. Hydrological modeling was vital in delineating the sub-watersheds and stream network. Morphometric computation and WSA was applicable in coming up with parameters and weighting the parameters for each sub-watershed’s prioritization. Change detection is related to how human activity is important for conservation as the effect of land forms and dimensions are compounded. Twenty-one fourth order streamed sub-watersheds were generated and prioritized using morphometry and change detection. Every sub-watershed is given a hierarchy based on the calculated compound parameter from the WSA equation developed and shows the risk of runoff and soil erosion. The morphometric prioritization shows 47% of the watersheds are in the high and very highly susceptible areas and there are two sub-watersheds with the highest land cover change. As well six sub-watersheds are risky with both land cover change and morphometry.