Accused Rashid and Shahid were produced before Additional Sessions Judge Daya Prakash after expiry of their custody and the court extended it after the special cell of Delhi Police said that their probe into the case was going on.
The special cell of Delhi Police had arrested the duo in December and claimed that they had met two persons in Muzaffarnagar region after the riots.
With their arrest, police had claimed to have busted a terror module of LeT which was in an "advanced stage" of planning a militant strike in Delhi.
The accused had said the matter required a "thorough and fair" probe as there were loopholes in the version of special cell.
In the letter, the counsel had referred to a speech given by Congress Vice President Rahul Gandhi on October 24 last year at Indore, where he said that "an officer of Intelligence Bureau had briefed him about the infiltration of ISI in relief camps in Muzaffarnagar for the purpose of recruitment of youngsters".