The shrine is located at an altitude of 3,880-metre in south Kashmir Himalayas.
"All the 89 pilgrims present at the Bhagwati camp left in four vehicles amid tight security arrangements around 2.45 am. They crossed the Jawahar Tunnel -- the gateway to Kashmir -- along the Srinagar-Jammu national highway around forenoon," the officials said.
The final batch included 15 women and 37 seers, they said.
While 56 of them have preferred the traditional 42-km Pahalgam route in Anantnag district, 33 others will join the yatra through the shorter 16-km Baltal route in Ganderbal district, they said.
After special prayers and other rituals, the saffron- robed holy mace was taken to Chandanwari yesterday and will reach the holy cave for final prayers on August 7 after night halts en route to Sheshnag and Panjtarni, marking the conclusion of the 40-day yatra on the occasion of 'Raksha Bandhan'.
The yatra which began on June 29 from the twin routes recorded a footfall of 2,58,414 pilgrims who paid their obeisance at the naturally formed ice-shivlingam till last evening.
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