Police said the incident took place in 5th Mile area on national highway 39 near Dimapur town last evening.
The attackers also set fire one of the vehicles but quick action by policemen prevented any damage.
Police said the trucks were engaged by Assam Rifles and were returning from Manipur after offloading goods.
No arrest has been made so far.
The Naga Students? Federation (NSF), which imposed the indefinite blockade since May 4 protesting the police action at Mao inter-state gate, claimed it was behind the incident and vowed to continue the agitation till their demands were met by the Manipur government.