The CBI had filed a petition on March 24 seeking the court's permission to conduct forensic tests.
Fourteenth Additional Chief Metropolitan Magistrate K Sudhakar, who is designated to try CBI cases, on Thursday allowed the agency to go ahead with the tests on Raju, his brother Rama Raju and Satyam's former CFO Vadlamani Srinivas anytime within the next eight weeks.
Raju and the others were arrested in early January after he wrote to the company board disclosing falsifying profits and cookings the books for years.
The CBI was handed over investigation of the case and is probing whether Raju siphoned off money from the listed company, which has since been sold to Tech Mahindra by a government appointed board.