The present study reports the start-up of treating metamorphic amylum production wastewater by anaerobic baffled reactor (ABR) and the bio-chemical features of granular sludge. The optimal conditions in treatment of the metamorphic amylum production wastewater were proposed, and the running performance in treating salt-containing wastewater was studied. Our results show that the common anaerobic activated sludge can be acclimated by increasing the organic loading and salt-concentration at the same time, and the granular sludge tolerant to low salt can be achieved by the acclimation. When chloric ion was 8,500 mg/L and salinity was 1.6%, the anaerobic activated sludge could degrade organic materials normally in the wastewater after the acclimation, and the COD removal is over 85%. When the concentration of metamorphic amylum production wastewater in the experiment was 12,640 mg/L and the optimal hydraulic retention time was 48 h, the removal efficiency of COD was 85.9%. Effect of sharp decrease of chloric ion concentration on sludge microorganism is larger than that of the sharp increase in the system. The system can endure the change of chloric ion concentration by increasing from 8,500 mg/L to 12,500 mg/L or decreasing from 8,500 mg/L to 4,500 mg/L, and it is more tolerant to the sudden increase than that of the sudden decrease of chloric ion concentration. The ABR system can treat the wastewater with chloric ion below 15,000 mg/L and salinity of about 2.5%.