It is alleged that Ross Ulbricht is the brains behind Silk Road and was known online as 'Dread Pirate Roberts'
Silk Road was shut down by US authorities after Mr. Ulbricht's arrest in October for allegedly masterminding the 'deep web' site.
However, in November a new marketplace bearing the same name appeared online.
The new iteration of Silk Road returned from a scheduled week of holiday on Saturday, but without any sign of its former leader 'Dread Pirate Roberts.'
Silk Road is a popular online black-market bazaar for drugs and other contraband. It is also accused of enabling the sale of 'malicious software' intended for hacking.
29-year-old Mr. Ulbricht lost a petition for his release in November and is currently being held in a metropolitan detention centre in Brooklyn.
According to court filings, Mr. Ulbricht's legal team have been discussing a possible plea deal with prosecutors.
On December 6, assistant US attorney Serrin Turner requested a 30 day extension of the deadline to file an indictment. He indicated that he had been engaged in discussions in October and November with Mr. Ulbricht's lawyer, Joshua Dratel, about a possible resolution of the case.
US Magistrate Judge James Francis granted the request for the extension so the talks could continue.
Mr Ulbricht is also under federal indictment in Baltimore, Maryland, in a case relating to a murder-for-hire plot.