Justice Sunita Gupta also issued notice to Delhi Police asking it to file a status report on an appeal by the 29-year -old female research analyst, who has alleged that "free and fair investigation" cannot be carried out if Pachauri was "allowed to roam around freely".
The court, which asked Pachauri to reply as to why the stay on his arrest should not be withdrawn, has now transferred the matter before another judge of the high court which had earlier heard the issue on two occasions.
Senior advocate Dayan Krishnan accepted the notice on behalf of Pachauri.
The complainant's counsel Prashant Mendiratta has alleged in the court that Pachauri was "dictating what needs to be said to the witnesses" in the case.
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He further claimed there was "overwhelming evidence" against Pachauri that he misused the bail conditions.
A criminal case on charges of sexual harassment, stalking and criminal intimidation was registered against Pachauri on February 18 by the police.
The woman's plea states that Pachauri "is abusing his position and hijacking the entire electronic evidence as well as the material witnesses".
Referring to a March 21 order of a lower court, the complainant has submitted that it had "miserably failed" to appreciate the evidence gathered by the police to demonstrate that Pachauri, in violation of court orders, was in active touch with officials of The Energy and Resources Institute (TERI) and influencing witnesses.