Durgesh Pathak alleged Saxena had pressured his employees to exchange demonetised currency notes worth Rs 1,400 crore in 2016.
Meanwhile, the LG's office had tweeted that Saxena, as KVIC chairman, had got the design of the Khadi Lounge, Mumbai made by his daughter, who is a designer, free of cost.
Sources at the LG office claimed that the CMO had continued to send files not signed by the chief minister despite the LG raising the issue.
In his report, the chief secretary has pointed out several unilateral decisions taken by Sisodia and the excise department headed by him that resulted in huge financial losses to the exchequer.
Under the policy, private firms were issued retail licences for 849 liquor vends across the city divided into 32 zones, however, it has now been withdrawn.
Delhi Lieutenant Governor V K Saxena recommended a CBI probe into the Delhi Excise Policy, 2021-22 over alleged violations of rules and procedural lapses.
Apart from this there were also "deliberate and gross procedural lapses" to provide post tender "undue benefits to liquor licensees", said the officials.
Delhi LG Vinai Kumar Saxena who addressed the media persons after taking oath as the 22nd Lt Governor of Delhi, did not comment when asked about Vardhan leaving the swearing-in ceremony.
Newly-appointed Lieutenant Governor of Delhi Vinai Kumar Saxena will take the oath of office at the Raj Niwas here on May 26, officials said on Tuesday.
The previous LG Anil Baijal put in his papers on May 18, citing "personal reasons". Sources said that this happened at the behest of the Centre, which wanted a replacement.
According to the chief minister's wife, she, her mother-in-law, Deputy Chief Minister Manish Sisodia wife and Health Minister Satyendar Jain's wife had gone to meet them at the L-G office today.
Delhi Lieutenant Governor works from home as CM Arvind Kejriwal, ministers occupy his office in protest
Anil Baijal has been holding meetings with officers at the camp office at his residence, which is just behind the L-G Secretariat where Kejriwal and his three ministers have been staging the sit-in.
Kejriwal and his Cabinet colleagues continued their dharna at the L-G's office, where they are camped since Monday evening, even as Health Minister Satyendar Jain began an indefinite hunger strike.
Kejriwal, his deputy Manish Sisodia and two ministers Gopal Rai and Satyendra Jain met Baijal this evening and decided to stay put at his office till their three demands were accepted.
Chief Minister Arvind Kejriwal said that in 1947, India got freedom and all British viceroys were removed, but in Delhi, L-G was appointed in place of viceroys.
Delhi L-G, Modi government should answer why police filed frivolous cases against AAP leaders: Arvind Kejriwal
Delhi CM reacted to a TNIE report on Delhi Lieutenant-Governor Anil Baijal questioning Delhi Police on discharge of AAP MLAs by various courts.
A complaint has been filed with the Delhi Police and the matter is being investigated, an official said.