"Concerned judicial institutions, including higher courts need to take suo motu action to halt this gross misuse of the investigation and judicial process," CPI said in a statement.
The party said it is obvious that the CBI has diluted the charge sheet and deliberately failed to present the facts before the CBI court that issued the discharge order.
"It is obvious that the CBI has diluted the charge sheet and deliberately failed to present the facts before the CBI court that issued the discharge order," the statement said.
In a major relief to BJP president Shah, a special CBI court on Tuesday had discharged him in the case of Sohrabuddin Sheikh fake encounter killing in 2005.
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CPI alleged that BJP is using all "means and avenues" to "white-wash" the grave crimes like the 2002 communal pogrom and series of fake encounters "that were committed when Narendra Modi was Chief Minister of Gujarat".
"In this case (Sohrabuddin case), the BJP government has already re-appointed a number of accused police officers though they have not been discharged and are only on bail... The ruling BJP's intention became clear from these actions that led to discharging of the BJP president," the party said.