Between 2003 and 2010, several pilot programmes supporting organic farming were launched, including the implementation of bio-villages where farmers were trained in organic farming practices and the production of organic inputs such as composting, organic fertilizers and organic pesticide using with local plants and cow urine. During this period, the government also invested substantially in the construction of vermicomposting pits. By 2009, more than 100 villages had benefited from these programmes, reaching 10,000 farmers in all four districts of the state.

Under the Sikkim Organic Mission, launched in 2010, a number of additional actions to support organic agriculture were implemented, including capacity building, organic seed and planting material production, setting up a seed and soil testing laboratory, operation of Sikkim Organic retail outlet at New Delhi, the inclusion of organic farming in school curricula, the conversion of the two state government farms at Nazitam and Mellidara, which became Organic Centres of Excellence for conducting organic farming demonstrations and trials, and the launch of three livelihood schools as training centres for unemployed youth.