Ishrat Jahan's family is likely to challenge the Union home ministry's decision not to prosecute four Intelligence Bureau officials in the alleged encounter case.
"It is incomprehensible why some files are missing," the former home minister said replying to questions.
A special court of the Central Bureau of Investigation in Ahmedabad on Tuesday rejected the anticipatory bail application of Additional Director General of Gujarat Police Prithvi Pal Pandey, paving the way for his arrest in the 2004 fake encounter case of Ishrat Jahan and three others.
The Central Bureau of Investigation has announced a reward of Rs 5 lakh for anyone providing information on Zishan Johar and Amjad Ali Rana, the two persons who were killed in an encounter along with Ishrat Jahan in June 2004.
Absconding senior Gujarat IPS officer P P Pandey, an accused in the Ishrat Jahan encounter case, on Monday made a dramatic appearance on a stretcher in a CBI court, which granted him anticipatory bail till July 31.
In a significant claim, Pakistani-American terrorist David Coleman Headley on Thursday said that Ishrat Jahan -- who was killed in an alleged fake encounter in 2004 in Gujarat --was actually a suicide bomber of Lashkar-e-Tayiba terror outfit.
An under secretary serving in the home ministry has filed the FIR at the Parliament Street Police station in New Delhi under Section 409 (criminal breach of trust by public servants) of the Indian Penal Code asking police to probe "why, how and under what circumstances" five documents related to the case went missing.
The Central Bureau of Investigation on Wednesday opposed bail application moved by suspended Indian Police Service officer D G Vanzara, an accused in the Ishrat Jahan fake encounter case, saying he may tamper with evidence as he is "politically well-connected".
With the supplementary chargesheet in the Ishrat Jahan encounter case finalised, the Central Bureau of Investigation has sought the opinion of the law ministry on whether sanction is needed to prosecute Intelligence Bureau officers in the conspiracy in which Gujarat Chief Minister Narendra Modi's aide Amit Shah may not be named.
Suspended IPS officers D G Vanzara and PP Pandey were on Thursday granted bail by a special Central Bureau of Investigation court in Ahmedabad in the 2004 case of fake encounter of Ishrat Jahan and 3 others after remaining in jail for 18 months.
Vanzara, an accused in the fake encounter cases of Ishrat Jahan, said good days have returned.
The panel's claim assumes significance as it was Pillai, few months ago, who alleged that Chidambaram as home minister 'bypassed him' and had rewritten the affidavit.