The system of rice intensification (SRI) has been proposed as a way of transitioning towards more sustainable rice farming. In rainfed rice farming, however, various environmental constraints often make SRI practices challenging to adopt. We conducted an on-farm experiment in 30 rainfed lowland fields to examine the technical efficacy of SRI in southern Cambodia during the wet seasons of over three years of 2012, 2013, and 2015. Across the three years, the SRI practices produced significantly greater plant biomass and grain yield than non-SRI. We ascribed the yield increase to the increased number of grains per land area as the increased number of spikelets per panicle rather than the number of panicles per land area. With no significant difference in seedling age between the SRI and the non-SRI, we attributed the more substantial number of grains per panicle to the reduced planting density, increased manure application, and reduced amount of inorganic fertilizers in SRI fields. Our results suggest that the advantage of the SRI lies in the efficient use of internally available soil nutrients, whose mechanisms need quantitative understanding through future studies.