Dabholkar's daughter Mukta Dabholkar urged the court through her lawyer to allow the family to intervene in the matter.
Her lawyer informed that Mukta had given certain details about Dabholkar to Pune police probing the murder, but since the investigators did not look into them the kin of the slain rationalist wanted to intervene in the PIL.
A bench headed by Justice P V Hardas then asked the lawyer to file a written application seeking permission to intervene, and posted the matter after two weeks.
Last week, the court had issued notice to CBI after petitioner Ketan Tirodkar amended his petition to include the agency as a respondent instead of NIA.
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Tirodkar argued that NIA had restricted jurisdiction as it was involved only in cases of terror, while CBI has wider powers as it investigates serious crimes.
Dabholkar, who spearheaded the anti-superstition movement in Maharashtra, was shot dead in Pune on August 20, 2013 while on morning walk. The police are still clueless about identity of his assailants.