The water quality in the interim wet storage of spent fuel (ISSF) needs to be monitored due to its function as a radiation shield. Water in ISSF pools must be free from microorganisms such as microalgae that live in a radioactive environment. Moreover, particular microalgae are capable of causing corrosion to stainless steel, which is a component of ISSF. Therefore, this study aims to determine the diversity of microalgae in the ISSF and those living in a radioactive environment, which cause corrosion. The microalgae were detected using the diversity and Palmer indices. The sampling of microalgae water was carried out by vertical filtration method at eight sites of ISSF. The results show that the diversity of microalgae (H′) was low due to radiation exposure in pool water, hence, only specific species can survive. The evenness (J′) of the microalgae was low, causing a high dominance index (C) value. Furthermore, the dominating species, namely, Chlorella sp. (Chlorophyceae), needs to be monitored because it has gamma radioresistance capabilities and can cause the corrosion of stainless steel.