Morsi appeared in court Sunday along with other defendants in separate soundproof glass docks.The ousted president was welcomed by supportive chants from the other defendants as he entered his separate dock.
He refused to answer the judge when asked to confirm his presence.
The defendants also refused to accept the defense lawyers selected by the country's Bar Association after their lawyers had withdrawn from last week's session to protest placing the defendants inside soundproof glass cages.
They chanted against as the prosecution representative as he read out the referral report and demanded maximum penalty for them.
The defendants called, instead, for the trial of the case prosecutors over what they described as "void" referral report.
The ousted president and 35 others are facing accusations of conspiring with the Palestinian resistance group Hamas and Lebanon's Hezbollah to carry out "terrorist acts" in Egypt.
Morsi faces two others trials on charges of jailbreak and inciting violence against anti-government protesters.
During all previous court appearances, Morsi had insisted he is still the "legitimate" president of Egypt.