Hyperolius minutissimus is easy to over look, so although it is rarely seen, it might not be quite so rare. Nevertheless, it is threatened by habitat loss (draining of its breeding habitat for agricultural activities, afforestation, agricultural expansion, fire, and expanding human settlements). It has not been recorded in the Udzungwa Mountains National Park. However, it occurs in the Udzungwa Scarp Forest, which was, as of 2014, soon to be a nature reserve. It has not been recorded in the Southern Highlands since the initial species description in 1975.