Speaking to reporters after the meeting, Singh rubbished the report saying it "wrongly" concluded that the prevailing situation was "not conducive" to conduct free-and-fair polls there.
However, just ahead of Ibobi's meeting with the President, the EC declared that the Assembly election will be held in two phases -- on March 4 and 8 -- in Manipur.
Ibobi, who was accompanied by Congress' Manipur election in-charge Ramesh Chennithala at the meeting, welcomed the decision.
The chief minister said issues such as insurgency, blockades, strikes are not unique to Manipur but they affect the entire north-east and that even in 2012, the state Assembly polls were boycotted by hill and valley-based underground organisations including the PLA and the UNLF.
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"The Congress in particular is not allowed to hold public meetings. But, ultimately the people support the party. They gave it a thumping majority in the last polls and even this time, there will not be any problem.
Manipur has been witnessing an unrest since November 1 last due to the imposition of an indefinite economic blockade by the United Naga Council (UNC) on the lifeline of the landlocked state, two national highways, and violence following the creation of seven new districts by bifurcating the existing ones.