Abstract: The yellow river irrigation areas in the central Gansu Province are the main potato growing and processing regions in China. However, continuous cropping has resulted in production losses and impaired the development of the potato industry in the region. A field experiment was conducted to evaluate the effectiveness of a combination of soil fumigation and bio-organic fertilizer application to increase yields through increased crop growth and suppression of soil-borne pathogens. Five treatment combinations including control (CK), soil fumigation using aqueous ammonia (SFA), soil fumigation plus lime and ammonium bicarbonate (SFB), a combination of SFA and bio-organic fertilizer application (SFA+BOF), and a combination of SFB and bio-organic fertilizer application (SFB+BOF), were utilised. Compared with CK, SFA+BOF and SFB+BOF treatments significantly increased tuber yield by 13.62% and 20.36%, decreased the incidence of diseased plants by 54.9% and 72.8%, and decreased the ratio of diseased tuber by 66.15% and 64.76%, respectively. Additionally, SFA+BOF and SFB+BOF treatments significantly increased leaf chlorophyll content and improved the morphological characteristics of potato roots. Compared with CK, SFA+BOF and SFB+BOF treatments increased soil bacteria and actinomycetes and decreased fungi populations. In particular, these treatments significantly decreased Fusarium sp. which reduced the incidence of diseased plants during crop growth and increased tuber yields. Neither treatment influenced soil enzyme activity but both treatments significantly increased soil phosphatase activity. Our results indicated that a combination of soil fumigation and bio-organic fertilizer application may potentially be used to control soil borne fungal diseases in potatoes.