The suspension followed what it described as breach of its diplomatic immunity by the Nigerian Army, which cordoned off its Pompomari, Maiduguri office, Friday, in search of Boko Haram terrorists.
The searched raised concerns amongst members of the worldwide community with the United Nations directing its humanitarian workers operating in Borno State to remain indoors.
Mr Kallon says that he is extremely concerned that the actions by the security forces could be "detrimental to the critical work that is being carried out every day to support the most vulnerable in the region".
Edward Kallon, the United Nations humanitarian coordinator for Nigeria, expressed "grave concern" Friday over the military's actions in Maiduguri in the northeast.
United Nations in Nigeria has reacted over what it termed the Nigerian Army's "unauthorised" search on its base for humanitarian workers in Maiduguri.
The raid happened against a backdrop of strained relations between the Nigerian military and foreign organisations seeking to relieve the humanitarian disaster engulfing the country's northeast.
According to him, the military recorded significant success in various operations conducted in the theatre in the past two weeks.
The statement said the army carried out a search on the property because it had credible intelligence that some Boko Haram insurgents had infiltrated the area.
But the army said it was not aware that the building housed United Nations personnel, and described the global organisation as one of its strongest and worthy allies in the fight against Boko Haram.
"It, therefore, became expedient to take preemptive action by combing the general area through a cordon and search operation". Notwithstanding, the search operation was conducted peacefully at the premises, when the troops were allowed into it, just like other buildings. About 30 houses were searched during the exercise and no arrests were made.
"On the whole, operation in the general area was successfully concluded but no arrest was made because the suspects were not found".
UN Secretary-General Antonio Guterres's spokesman Stephane Dujarric said that the organisation had formally complained to the Nigerian government.
"Information about Shekau's presence in the Red Roof was already being spread yesterday (Thursday) on the social media", said the document, apparently issued by the UN's Department of Safety.
The UN ordered local staff to work from home today following the incident.
"I don't think the United Nations should be angry (over the search) unless it is supporting the insurgents", the security expert added.
She had yet to do so as of the time of filing this report.