File No. 8-1-WR/JSS/90/Vol.III—containing notings of bureaucrats regarding security arrangements for Rajiv Gandhi from November '89—was lost from the PMO in '91. Later, it was doctored and reconstructed by the Narasimha Rao government before it was submitted to the Jain Commission.
- File No. 1/12014/5/91-IAS/DIII reported missing since 1995. It pertained to the terms of reference of the Verma and Jain commissions of inquiry.
File containing intercepted messages from foreign intelligence agencies, said to be addressed to Chandraswami and Janata Party president Subramanian Swamy, destroyed by senior officials in the PMO.
- File on IB's assessment of the role played by Zail Singh and Chandraswami in 1987 to topple Rajiv Gandhi missing.