Aquaculture and agricultural production generate substantial amounts of waste, including seaweed (which has plant-stimulating properties), oyster shells, and sugar residues. Through composting and appropriate management, these wastes have the potential to be converted into beneficial soil amendments. However, there is a lack of research exploring the potential of composting in promoting the conversion of seaweed into more stable humified forms, as well as in assessing whether composted seaweed retains its beneficial effects on plant growth. Additionally, studies on using oyster shells as additives to reduce waste pressure and comparing their effectiveness with biochar are relatively scarce. This study examines the impact of incorporating 5% corn stover biochar (T1), 10% biochar (T2), and 10% oyster shell powder (T3) on key physicochemical properties, product quality, and microbial community dynamics during the co-composting of seaweed and sugar residues. Results indicate that organic matter (OM) loss in T1 and T2 increased by 31.2% and 26.4%, respectively, compared to the control (CK). Moreover, Excitation-emission matrix (EEM) fluorescence spectroscopy revealed that humic substances in T1 and T2 surged by 434% and 423%, respectively, far exceeding the 289% increase in CK. The 10% biochar treatment also improved alginate degradation and seed germination index, due to the presence of biostimulants in seaweed and an increased abundance of Cobetia. Microbial analysis post-composting showed that T2 and T3 significantly enhanced the diversity and richness of bacterial communities. Notably, although oyster shell powder did not improve the humification degree of compost as significantly as biochar, it achieved effective weight reduction of waste (OM loss of 43.57%, far exceeding CK's 35.34%) without hindering the composting process. All four compost treatments retained the plant-stimulating effects of seaweed and facilitated alginate degradation. These results underscore the potential of biochar to enhance composting efficiency and utilize composting to process large quantities of oyster shell waste.