The main purpose of the present work was to study the neurocognitive endophenotypes of adolescents at risk for low personal wellbeing. The sample included a total of 1588 adolescents from stratified random cluster sampling; derived from this sample, a group of high-risk (n = 84) and a control group (n = 84) were selected. The personal well-being index–school children (PWI–SC), the University of Pennsylvania computerized neuropsychological test battery for children (included 14 tasks assessing five neurobehavioral domains: executive functions, episodic memory, complex cognition, social cognition and sensorimotor speed), and the strengths and difficulties questionnaire (SDQ) were used. Adolescents with low personal wellbeing showed statistically significant impairments across the different neurocognitive domains. In particular, adolescents at risk showed lower accuracy scores on executive function and complex cognition and lower speed scores on episodic memory, complex cognition and social cognition scores. The results of the present study contribute relevant information about the nature of neurocognitive impairments associated with subjective wellbeing and allow implementing preventive treatments.