There are a number of species pairs, especially in the genus Drosophila, which despite having acquired distinct species status, can still be hybridized. Such species can be very useful for studying hybrid incompatibilities which ultimately can lead to speciation genes (the genes that have diverged to the greatest extent between the species). D. bipectinata species complex, comprising four closely related species, D. bipectinata, D. parabipectinata, D. malerkotliana and D. pseudoananassae, is one example where the members can be cross-fertilized, but only in the laboratory. However, consistent with Haldane’s rule among the hybrids, the females are fertile (homogametic sex) and males are sterile (heterogametic sex) (Bock 1971a). We performed studies on fluctuating asymmetry (FA) in the interspecific hybrids of this complex with the thought of comparing the level of the same with the respective parental species. During the course of our investigation, we came across certain abnormalities in the hybrids having D. pseudoananassae as one of the parental species. One of them was the occurrence of asymmetrical eyes in hybrid males. This note gives a description of the asymmetrical eyes and the possible explanation(s) for such an abnormality. Taxonomically, D. bipectinata species complex belongs to the subgroup ananassae of the widely divergedmelanogaster species group. The females of the members are morphologically indistinguishable but the males can be distinguished on the basis of pigmentation of abdominal tip and sex comb arrangements (Bock and Wheeler 1972). A number of population genetics, behaviour, taxonomic and evolutionary studies have been carried out in the complex (Bock 1971a,b; Banerjee and Singh 1997; Kopp and Barmina 2005; Kopp et al. 2006; Mishra and Singh 2006, 2007; Singh and Sisodia 2008; Nanda and Singh 2012; Banerjee and Singh 2012; Santosh and Krishna 2013; Singh and Singh 2013). It is evident