It was learnt that Mukherjee had sold a loss-making cement company to Saradha CMD Sudipta Sen .
The searches were carried out in Delhi, Bengal, Assam and Orissa.
The Commission is also receiving complaints against chit funds.
ED, which is conducting parallel investigations, will soon start the process of attaching property and assets of the Saradha Group.
Sikkim police registers two cases against EIILM university; ED probes money laundering.
The Supreme Court had on May 9 transferred the investigation into the chit fund scam to CBI.
A city court remanded Saradha chit fund scam accused Sudipta Sen and his son Subhojit in 14 days’ judicial custody.
Ghosh had on many occasions accused the ruling Trinamool Congress of trying to save those involved in the scam.
The CBI will also look into the role of regulators like SEBI, authorities under the Companies Act and the RBI as directed by the apex court.
The CBI will be collecting documents from all state governments pertaining to the scam which has been termed by the SC as a “sordid affair”.
BJP mounted a scathing attack on Naveen Patnaik accusing him of protecting the culprits.
Justice (retd) Shyamal Sen, who heads the commission, claimed that it will continue to perform the duties it was assigned by the state government.
The opposition has alleged that Trinamool Congress had close links with Sudipta Sen, chairman of the now bust Saradha Group.
The court also asked the CBI to take over from state police the investigations into chit fund scams.
The CBI and the Enforcement Directorate would have parallel investigations. The ED has even managed to trace the money trail in the case.