Sulfoxaflor is a promising neonicotinoid. However, the negative implications of sulfoxaflor on nontarget aquatic organisms have been rarely studied. In this study, the risks of sulfoxaflor and its main metabolites X11719474 and X11519540 on Daphnia magna were characterized, including acute toxicity, reproduction, swimming behavior, biochemical markers, and gene transcription. Acute toxicity measurements indicated that X11719474 and X11519540 have high toxicity than the parent compound sulfoxaflor. Chronic exposure reduced reproduction and delayed the birth of the firstborn D. magna. Swimming behavior monitoring showed that exposure to three compounds stimulated swimming behavior. The induction of catalase, superoxide dismutase, and acetylcholinesterase activities was observed with oxidative stress, whereas malondialdehyde content was remarkably increased with exposure to sulfoxaflor, X11719474, and X11519540. Moreover, transcriptomics profiles showed that sulfoxaflor, X11719474, and X11519540 induced KEGG pathways related to cellular processes, organismal systems, and metabolisms. The findings present valuable insights into the prospective hazards of these pesticides and emphasize the critical importance of conducting a systematic evaluation of combining antecedents and their metabolites.