Purpose: The present study aimed to investigate associations between hormonal profile (cortisol and testosterone) and the psychobiological aspects of Paralympic athletes during a competitive season. Method: Male Brazilian Paralympic swimmers (n = 11) were evaluated in three Training Camps (TC) during the cycle of training for the Paralympic Games RIO 2016. Questionnaires were used for data collection of stress and recovery, motivation in sport and hormonal status was assessed by salivary samples of cortisol ([Csal]) and testosterone ([Tsal]) concentrations. The Friedman test was used to identify overall significant differences at the three TC for each variable. When the overall p value indicated statistical significance (p < .05), a post hoc Wilcoxon signed-rank test for paired data was used to compare pairs of TC. The Spearman correlation was used to identify associations between the hormonal profile and the psychobiological aspects. Results: There was an association between the [Csal] and the "Conflicts/Pressure" sub-scale (r = 0.60; p = .04) in TC1 and the "Lack of Energy" subscale (r = 0.63; p = .03) in TC2. In the TC3, there were correlations between [Tsal] and "To Know" intrinsic motivation (r = 0.83, p < .01), "Objectives"(r = 0.66, p < .02), "Experiences" (r = 0.65, p < .02) and "Amotivation" (r = -0.70, p = .01). There were also associations between the [Tsal] and the "Social Recovery" (r = 0.77, p < .01), "General Wellness" (r = 0.73, p < .01), "Sleep Quality" (r = 0.63, p = .03) and "Self-efficacy" (r = 0.60, p = .05) subscales. In TC3, there was an association between [Tsal] and the "Success" (r = 0.61, p = .04), "Sleep Quality" (r = 0.62, p = .03), "Personal Accomplish" (r = 0.82, p < .01), "Self-efficacy" (r = 0.82, p < .05), "Self-regulation" (r = 0.85, p < .01) and "Physical Recovery" (r = 0.80, p < .01) subscales. The data demonstrate associations between biomarkers (salivary testosterone and cortisol) and psychobiological domains of Paralympic swimmers.