Purpose: The assessment of endocrine status in elite athletes is typically linked to training load and perceived stress; however, the relationship between hormonal parameters and psychosomatic and stress indicators remains insufficiently understood. This study aimed to investigate the associations between endocrine status and stress, mood, and psychosomatic status indicators in elite handball players. Methods: In a cross-sectional study, salivary cortisol (with no strict control over wake-up time), testosterone, and—in female athletes—17-β-estradiol concentrations were assessed in 584 elite handball players aged 14–35 years using ELISA. Psychological variables were evaluated using the Perceived Stress Scale (PSS), Profile of Mood States (POMS), and the Health Behavior in School-aged Children Symptom Checklist (HBSC-SCL). Associations were examined using non-parametric tests and general linear models adjusted for age. Results: Hormonal and psychological variables demonstrated significant age-related trends. No significant associations were observed between hormonal parameters and perceived stress or mood disturbance (values for the general linear model (GLM) were all p > 0.05). In contrast, psychosomatic symptom severity was significantly associated with cortisol levels in male athletes (GLM, p < 0.001) and testosterone levels in female athletes (GLM, p = 0.009). Multivariate analyses confirmed the relevance of psychosomatic symptoms and indicated interaction effects between stress-related factors. Conclusion: Psychosomatic symptoms were more closely associated with endocrine status than with perceived stress or mood disturbance in elite handball players. However, these associations were characterized by relatively small effect sizes, indicating that psychosomatic symptoms explain only a limited proportion of the variance in hormonal parameters. These findings suggest that psychosomatic indicators may provide a more sensitive reflection of physiological strain and support the use of integrated monitoring approaches combining endocrine and psychosomatic measures in elite sport. In practical terms, routine monitoring of psychosomatic symptoms alongside hormonal measures may help practitioners to identify early signs of physiological strain and support timely adjustments in training load and recovery strategies.