To assess dental caries trends in indigenous children in South Australia, 2001-2010; and contribution by area-level socioeconomic status (SES), remoteness and water fluoridation status. This study is a part of the Child Dental Health Survey (CDHS) is an ongoing national surveillance survey in Australia including children enrolled in the School Dental Services (SDS). Postcode-level adjusted mean deciduous and permanent caries experience was estimated at each year. Time trend of dental caries experience was estimated using mixed effect models. Area-level socioeconomic status, remoteness, water fluoridation status were independent variables in the models. There was a significant upward trend of dental caries experience over the 10 years. Dental caries experience of indigenous children living in low SES areas had nearly one more deciduous tooth and a half permanent tooth with caries than indigenous children living in higher SES areas. The remote postcodes showed higher levels of decay in deciduous dentition (+1.25 teeth) compared with others regions. The dental caries trend increased in South Australian indigenous children over the study period, and was associated with area-level SES and remoteness. The increasing trend in dental caries in indigenous children is important evidence to inform policies to improve oral health.