A greenhouse pot experiment was conducted to investigate the influence of the combined application of filter cake and macadamia husk compost (FC+MHC) on the soil fertility and dry matter partitioning of Beauregard and 199062.1 cultivars of orange-fleshed sweet potato. The effects of the two organic wastes on the mineral nutrients in the leaves and the storage roots of the 199062.1 cultivar were also investigated. In addition to FC+MHC, four other treatments—filter cake only (FC), macadamia husk compost only (MHC), inorganic fertilizer only (IF), a combination of filter cake and inorganic fertilizer (FC+IF), a combination of macadamia husk compost and inorganic fertilizer (MHC+IF), and a control (CONT)—were included in the investigation for the purpose of comparison. To achieve this, 1 kg of compost was homogenized with 20 kg of soil and filled into graduated 25 L buckets. The experimental design was completely randomized. The plants were grown for 4 months. The results indicated that all treatments altered the soil fertility positively. There were indications that both filter cake and macadamia husk compost inhibited the absorption of iron (Fe), copper (Cu), and aluminum (Al). Also, zinc (Zn) and phosphorus (P) deficiencies in the initial soil were corrected after the application of the organic wastes. In terms of yield, FC+MHC was better than all other treatments. The outcome of this study will no doubt greatly benefit the resource-poor farmers of Northern KwaZulu-Natal who are involved in the production of orange-fleshed sweet potatoes.