The invention belongs to the field of analytic chemistry and clinical medicine, and discloses a metabolism marker related to idiopathic male infertility in urine, and a detection method and application thereof. The metabolism marker is L-leucine and/or L-palmitoyl carnitine, is detected by adopting UPLC-Qexactive MS method, can be used for auxiliary diagnosis and monitoring of idiopathic male infertility, has higher sensitivity and specificity, and has a clinical spread value.