Objective Chronic diseases are among the major causes of disability, and are associated with substantial individual and societal economic losses. The objective of this study was to assess the association of the different levels of disability, functioning, and work limitation, with chronic diseases. Methods A total of 516 workers were classified according to chronic disease status, and evaluated for disability, functioning and work Limitation. Quantile regression was performed to assess the associations across the quantiles of the disability, functioning, and work limitation. Results Overall disability was significantly associated with chronic diseases across all quantiles, while work limitation was only significant at the median and higher quantiles. Functioning domains showed a variable pattern of associations across their quantiles. Conclusions Chronic diseases showed a variable magnitude and significance of associations across the levels of disability, functioning, and work limitation.