It comes at a critical moment as the Taliban attempt to consolidate power and transform their guerrilla fighters into a structured police and security force.
While the group attempts to project an air of authority through reports of raids and arrests of IS members, it remains unclear if it has the capability to protect soft targets, including religious institutions.
In Kunduz, police officials were still picking up the pieces on Friday at the Gozar-e-Sayed Abad Mosque.
The death toll is the highest in an attack since foreign troops left Afghanistan.
The United Nations mission in Afghanistan condemned the attack as “part of a disturbing pattern of violence” targeting religious institutions.
A prominent Shia cleric, Sayed Hussain Alimi Balkhi, condemned the attack and called on the Taliban to provide security for the Shiites of Afghanistan.
“We expect the security forces of the government to provide security for the mosques since they collected the weapons that were provided for the security of the worship places,” he said.
The new tone struck by the Taliban, at least in Kunduz, is in sharp contrast to the well-documented history of Taliban fighters committing a litany of atrocities against minorities, including Hazaras.
The Taliban, now feeling the weight of governing, employed similar tactics to those of IS during their 20-year insurgency, including suicide bombings and shooting ambushes, and they have not halted attacks on Hazaras.
Earlier this week, a report by Amnesty International found the Taliban unlawfully killed 13 Hazaras, including a 17-year-old girl, in Daykundi province, after members of the security forces of the former government surrendered.
In Kunduz province, Hazaras make up about six per cent of the population of nearly a million people. The province also has a large ethnic Uzbek population that has been targeted for recruitment by IS, which is closely aligned with the militant Islamic Movement of Uzbekistan.