High dose of inorganic fertilizer use of farmers? practice has led to high disease infection, low crop yield and high investment. The objectives of this study were to evaluation the effect of bio-compost (sugar-cane filter cake plus Trichoderma spp.) on improvement of soil fertility, crop yields and control of soil-borne diseases on some upland crops. Crops were selected for field experiments through two consecutive crops such as onion (Allium cepa), ginger (Zingiber officinale) and water melon (Citrullus lanatus (Thunb.). Bio-compost was applied at 10 tonnes.ha-1 in combination with 75% dose of recommended inorganic fertilizers to compare to farmers' practice. The results showed that application of bio-compost at the levels of 10 tonnes.ha-1 with reduction in inorganic fertilizer led to a significant increase in soil organic matter content, soil nitrogen mineralization, soil respiration, exchangeable Ca, soil structure stability. The onion bulb disease caused by Colletotrichum sp. was low (below 1%) in organic amended compared with inorganic management (5%). Rhizoctonia solani infected on ginger was reduced from 32% to 18%; and from 8% to 0.3% for Fusarium wilt infected on watermelon, . Concerning crop yields, using bio-organic amendment with low dose of inorganic fertilizer resulted in increasing yield from 32-40% in comparison to farmers? practice (p