This article discusses religious issues and implementation of the National Education System Law (Undang- Undang Sistem Pendidikan Nasional or Sisdiknas Law) No. 20 of 2003. The presence of Sisdiknas 2003 can not be separated from the power struggles that occur at the time. The ideological debate among the Indonesian elite had not ended, and caused crisis in managing education in Indonesia. As a result, the mobilization of educational resources to achieve the educational goals met some obstacles; one of them is on private education especially those established by religious institutions. The politics of education in Indonesia is still dominated by groups' interests. Consequently national education law has not appreciated the diversity of Indonesia, and has not become the property of all individuals and groups.