They were expected to be on their way to Brazil but the African champions failed to fly to South Africa from Namibia on Tuesday due to a row over win bonus for a World Cup qualifier.
The Super Eagles were to have flown out of Windhoek to Johannesburg, Thursday afternoon and head to Sao Paulo, Brazil, minutes before 6pm South African time.
They were to be in Sao Paulo by midnight and connect immediately to Belo Horizonte, venue of their opening match of the FIFA confederations cup against Tahiti on Monday.
The Eagles have insisted they be paid at least $5,000 for a 1 all draw with hosts Namibia on Wednesday night. They said they were not properly communicated on a pay slash.