The report was submitted by retired judge of Madhya Pradesh High Court S K Pandey.
The one-man judicial commission's report has been submitted to MP's General Administration Department Additional Chief Secretary (ASC) Prabhanshu Kamal, a top official of the GAD confirmed to PTI, but he did not reveal when it was submitted.
"I have been operated upon and am out of Bhopal," said Pandey when contacted over phone.
The reports are expected to be tabled in the winter session of the state assembly.
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The MP government had on November 3 announced the one-man judicial commission comprising (retired) Justice Pandey to probe all aspects related to how SIMI activists escaped from the high security jail after killing the security guard and the alleged encounter that took place afterward.
After the October 31 encounter, conflicting versions from police and state home minister had surfaced, leading to allegations that the whole episode might be fake.
In April, a US State Department report had criticised the Indian government over alleged human rights violations, citing the police action in this case, among other things, according to media reports.
The report 'Human Rights Practices in India for 2016' talked about the killing in the encounter under a sub-section titled 'arbitrary deprivation of life and other unlawful or politically motivated killings'.