Simple SummaryFarmed fish must cope with different stressors during aquaculture procedures, such as high densities, fasting, transport, or air exposure during handling. The severity and timing of these stressors can produce important imbalances in the overall status of the animals, triggering several endocrine and physiological players. In this study, gilthead sea bream (Sparus aurata) juveniles were assigned to four experimental conditions: (1) fed at a low stocking density (LSD-F, 4 kg·m−3); (2) fed at a high stocking density (HSD-F, 40 kg·m−3); (3) food-deprived at LSD (LSD-FD); and (4) food-deprived at HSD (HSD-FD). This served to evaluate, both at the plasma and central (brain) levels, the role of several hormonal (cortisol and catecholamines) and monoamine (dopaminergic and serotonergic neurotransmitters) functionalities. Our results evidenced chronic stress exposure (i.e., a high stocking density and food deprivation) fallouts in the enhancement of the parameters related to the stress response, where monoaminergic activities in different brain regions served to reorganize the physiological response depending on the challenge applied.In teleosts, brain monoamines (dopamine and serotonin) participate in the early response to different acute stressors. However, little is known regarding their role during chronic stress. In a 2 × 2 factorial design, the influence of a high stocking density (HSD) and/or food deprivation (FD) on the brain monoaminergic activity in gilthead sea bream (Sparus aurata) was evaluated. Following a 21-day experimental design, samples from the plasma and brain regions (telencephalon, hypothalamus, and optic tectum) were collected. The dopamine (DA), serotonin (5HT), and their main metabolites, 3,4-dihydroxyphenylacetic acid (DOPAC) and 5 hydroxyindoleacetic acid (5HIAA), contents were HPLC-assessed in brain tissues, and the ratios DOPAC/DA and 5HIAA/5HT were calculated as indicators of enhanced monoaminergic activity. The plasma levels of cortisol and catecholamine were also evaluated. The cortisol levels increased in fish exposed to HSD and normally fed but, also, in all FD groups, whereas the NA levels decreased in LSD-FD animals. Within the brain, the dopaminergic and serotonergic activities in telencephalon and hypothalamus increased in fish subjected to HSD and in the telencephalon of LSD-FD fish. While DA (hypothalamus) and 5HT (telencephalon) increased in the animals submitted to a HSD, food-deprived fish did not show such an increase. Taken together, our results supported the hypothesis of brain monoaminergic activity participating in maintaining and orchestrating the endocrine response to chronic stress in fish.