The day marks the crucifixion of Jesus Christ atop the Calvary Hill in Jerusalem nearly 2,000 years ago.
Special sermons on salvation and prayers for repentance were held in churches across the three north-eastern states.
In Meghalaya, people, mostly dressed in black, took out a procession from Catholic Cathedral, one of the prominent landmarks in the capital city of Shillong.
Catholics were also seen gathering in large numbers at Cathedral Church of Mary Help of Christians in Shillong to attend a mass prayer meet.
In the Garo Hills, Christian devout observed Good Friday by attending special church service.
Though a massive thunderstorm accompanied by hail and strong winds snapped power supply ahead of the observance, but it failed to deter the spirit of the devotees.
At the Sacred Heart Shrine in Tura, Catholic faithful enacted the 14 Stations of the Cross to commemorate the last journey of Lord Jesus Christ to Mount Calvary where he was crucified on the cross by the Romans.
Similar prayer meets were also held in several parts across Nagaland on Friday to mark the holy day.
In Kohima, a special cross procession, commemorating the walk of Jesus Christ to Mount Calvary, was organized by the Catholic churches.
In Mizoram, too, the members of the Catholic Church took out processions in the capital city of Aizawl and other parts of the State.