Members of the union had embarked on the strike on April 6 to press home their demand for full implementation of financial autonomy for the judicial arm of government.
The strike is the longest industrial action the Nigerian judiciary has ever recorded.
JUSUN embarked on strike in January 2015 for the same reason but it lasted for two weeks.
The union announced the suspension of the latest strike in a communique issued at the end of the NEC meeting on Wednesday.
It cited the intervention of the National Judicial Council and other stakeholders in reaching the decision to suspend the strike.
NAN reports that the JUSUN had in a circular on April 1, directed the strike to compel state governments to comply with the Constitution, court judgments and other instruments which confered or re-emphasised financial autonomy for the judiciary.
In the communique, the NEC commended the chief justice of the federation and all heads of courts for patience and understanding throughout the period of the industrial action.
The NEC condemned withholding of salaries of judiciary workers by some state governors for embarking on the strike.
It urged the governors to do the needful.
The communique was signed by the JUSUN Deputy President, Mr Emmanuel Abioye, and General Secretary, Mr I. M. Adetola.
Reacting to the suspension of the strike, Mr Chibuikem Opara, a lawyer with Justification Law Firm, Ikeja, said that JUSUN had made a statement by sustaining the strike for two months.
“I believe it is the right thing to do in calling off the strike after making inroads on its objectives.