However, his opponent, Comrade Joe Ajero, of the NIgeria Union of Electricity Employees (NUEE) has said he will not accept the result.
Intrigues had dogged the election, which was a rerun of an earlier botched one a month ago following the destruction of ballot boxes and papers on the claims of attempted rigging.
There huge presence of police officers and staff of the NIgeria Security and Civil Defense prevented an attempt by some people to disrupt the process which saw 3119 delegates from 43 affiliate unions voting.
Voting started at exactly 5:23 pm Thursday and ended by 3:13 Friday morning while counting started Friday 11 pm, lasting into Saturday morning.
The retuning officer, Dangiwar Aliyu who is also the pioneer general secretary of the NLC declared Wabba winner of the election.
He announced that Waba polled 1, 695 votes of 3115 votes to defeat Joe Ajaero who polled 1, 140 votes.
Five contestants vied for the three positions available for the deputy presidents' positions. They were Adeyemi Peters, Issa Aremu, Igwe Achese, Kiri Mohammed and Najeem Yasin.
Adeyemi Peters, Kiri Mohammed and Najeem Yasin emerged winners. Other positions were also contested for.