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Human agricultural activities have resulted in widespread land degradation and soil contamination in the karst areas. However, the effects of reforestation after agricultural abandonment on the mobility risks and contamination of heavy metals have been rarely reported. In the present study, six soil profiles were selected from cropland and abandoned cropland with reforestation in the Puding karst regions of Southwest China. The Community Bureau of Reference (BCR) sequential extraction method was used to evaluate the compositions of different chemical fractions of soil heavy metals, including Fe, Mn, Cr, Zn, Ni, and Cd. The total contents of Cr, Ni, Zn, Cd, and Mn in the croplands were significantly higher than those in the abandoned croplands. For all soils, Cr, Ni, Zn, and Fe were mainly concentrated in the residual fractions (>85%), whereas Mn and Cd were mostly observed in the non-residual fractions (>65%). The non-residual fractions of Cd, Cr, Ni, and Zn in the croplands were higher than those in the abandoned croplands. These results indicated that the content and mobility of soil heavy metals decreased after reforestation. The individual contamination factor (ICF) and risk assessment code (RAC) showed that Cd contributed to considerable contamination of karst soils. The global contamination factor (GCF) and potential ecological risk index (RI) suggested low contamination and ecological risk of the investigated heavy metals in the croplands, moreover they can be further reduced after reforestation.