Armed troops have been deployed to the departure and arrival gates of both Abuja's international airport and that of the economic capital Lagos, sources told AFP.
In Lagos, cars may no longer drop passengers off outside the airport terminal but in front of a church some 200 metres where they must take a shuttle.
The measures are in addition to precautions announced earlier ahead of the three-day World Economic Forum on Africa, dubbed the "African Davos", beginning Wednesday, which Chinese Premier Li Keqiang is due to attend.
April 14 in Abuja's Nyanya suburb saw the capital's deadliest attack ever, when 75 people were killed, and the second was a stone's throw away, considered a "copy-cat" attack and claiming 19 lives on Thursday.
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Also on April 14, suspected Boko Haram gunmen kidnapped scores of schoolgirls in northeastern Nigeria, the main theatre of their insurgency that has killed thousands since 2009.
The WEF said in a statement that its security arrangements for the conference, to be held at a top Abuja hotel, were "robust".
"There are no plans to make any changes to the programme or content of the meeting," it said, offering sympathy for the victims of the attacks.
Nigeria, however, announced that all government offices and schools would be shut during the conference, while local organisers have said more than 6,000 police and soldiers would be deployed to ensure delegates' safety.