Long-term CO₂ and PM_2.5 measurements in urban areas have important impacts on understanding the roles of urbanization in climate change and air pollution. From 2009 to 2017, CO₂ fluxes were measured by the eddy covariance (EC) system at a height of 140 m on the Beijing Meteorological Tower. The CO₂ fluxes followed a typical two-peak diurnal pattern all year round. The PM_2.5 concentrations followed a similar diurnal pattern as the CO₂ fluxes in summer but a different diurnal pattern in winter (low in the day and high at night). On a seasonal time scale, both the CO₂ fluxes and the PM_2.5 concentrations showed a pronounced seasonal variation (high in winter and low in summer). The spatial variations in CO₂ fluxes were dominated by the prevailing land use types within the flux footprint, particularly dense residential areas and heavy traffic roads. On both diurnal and annual time scales, the urban underlying surface was a net source of CO₂. The 9-year average annual total CO₂ flux was 36.4 kg CO₂·m⁻² yr⁻¹. Depending on the yearly prevailing wind direction, the effect of the heterogeneity correction on the annual total CO₂ fluxes based on the gap-filled dataset could reach up to 3.5%. Over the 9-year period, both the CO₂ fluxes and the PM_2.5 concentrations exhibited a declining interannual trend, and CO₂ fluxes could account for 64% of the interannual variability in PM_2.5 concentrations. In summer, emissions were more likely to control the interannual variability in PM_2.5 concentrations, whereas in winter, meteorological conditions had a greater impact on the interannual variability in PM_2.5 concentrations.