As the case of Prisoner X raises storm the world over, Israeli media has dubbed it a "catastrophe" and a "tragedy" raising several questions that strike at the very heart of the workings of a democratic state.
"The sweeping use of the gag order and the defence establishment's losing battle against the Internet and social networks are merely the subplots," an analyst for left leaning Ha'aretz daily, Uri Misgav, stated.
"The real issue is the state's spiriting away an Israeli-Australian citizen, who worked for it, and locking him up hermetically until he died in strange, suspicious circumstances," he was quoted as saying.
The Jerusalem Post's Or Heller sums up the affair in two words - "tragedy and negligence".
"Why tragedy? Because at the end of the day, we're talking about a young, idealistic Australian Zionist Jew who left a comfortable life in a quiet Melbourne suburb and made aliya (immigration) at the age of 19, joined the IDF (Israel Defence Forces), and then later the Mossad," Heller says.
"What happened to Ben Zygier along the way? How did he go from being an enthusiastic idealist who passed through all the Mossad's rigorous filters to ending his life by hanging in Block 15 in Ayalon Prison?" he questions.
A senior official in the Justice Ministry yesterday said the government was considering filing an indictment in connection with the suicide of "prisoner X" aka Ben Zygiers.
A court has already ordered investigation into possible negligence in the handling of the dual Israel-Australian national's death.
However, Ha'aretz points out that the most troubling and problematic factor in the story is the Israeli justice system.
"This system betrayed its duty grievously and cooperated with the defence establishment in a catastrophic procedure, with catastrophic consequences," Misgav noted.
Zygier-Alon died before the three district judges appointed to try his case had issued their verdict.
"This means Zygier-Alon (how convenient to call him "Anonymous") died an innocent man. Like any defendant, he was innocent until proven otherwise," the columnist said.
"The unnamed judges decided to conduct the trial in the dark. Not behind closed doors, as customary in sensitive security cases, but in complete darkness, as though it never existed."
The Mossad and the Justice Ministry offered Zygier, 34, who had spent considerable time for the espionage agency in Syria, Iran and Lebanon, a plea bargain while he was in jail offering a more than 10 years sentence in prison.
The agent dismissed the plea bargain choosing to stand trial instead.
Misgav demanded, "This story must end with a state inquiry commission. It's analogous to the Bus 300 affair. The Israeli public deserves to know if there are also a prisoner Y and a prisoner Z in Israeli prisons."