In recent years, the international community has increasingly focused on the “dual carbon” issue, as human-induced land use changes significantly impact ecosystem structure and carbon cycling. This study analyzes land use changes in the economic zone of the northern Gulf of Guangxi from 1980 to 2020, utilizing the InVEST model to simulate spatiotemporal changes in carbon storage and conducting zoning studies through spatial analysis. The findings reveal that ① forest land and arable land dominate the northern Gulf of Guangxi’s land use, with notable changes observed in forest land, unused land, and construction land areas. Forest land and construction land have increased by 1761.5 km2 and 1001.19 km2, respectively, while unused land has decreased by 1881.18 km2 from 2000 to 2020. ② The total carbon storage values in the northern Gulf of Guangxi in 1980, 2000, and 2020 were, respectively, 504.91 × 106/t, 487.29 × 106/t, and 500.31 × 106/t, with the expansion of construction land and conversion of forest land being the main reasons for the decrease in carbon storage. ③ In the northern Gulf of Guangxi, there is a slight upward trend in total carbon storage values over time. Spatially, higher carbon storage values are observed in mountainous and hilly areas at high altitudes, while the central and southern coastal areas exhibit lower carbon storage values. ④ The local spatial autocorrelation results reveal that Pu Bei County exhibits high–high clustering of carbon storage, while He Pu County undergoes a transition from high–low to low–low clustering, and several other administrative areas in Beihai demonstrates low–low clustering. Due to the imperative of economic development, the expansion of urban construction land encroaches upon ecological land, resulting in a decline in carbon storage. Therefore, in the Northern Gulf of Guangxi, it is essential to implement measures such as reforestation and establish ecological protection areas such as forests, grasslands, and wetlands to develop effective carbon sequestration methods and compensate for the carbon loss caused by the expansion of construction land.