Super Eagles striker, Victor Osimhen, was one of the three players that were absent from training on New Year’s Day.
The other two are Ryan Alebiosu and Cyriel Dessers.
Nigeria is preparing to play Mozambique in the last 16 of the 2025 Africa Cup of Nations on Monday.
Head coach Eric Chelle insisted the squad trained behind closed doors on Thursday.
However, the trio of Osimhen, Dessers and Alebiosu were missing in the session.
Both Dessers and Alebiosu are injured and are unlikely to be fit for the encounter.
But Osimhen is believed to have been rested as the coaching staff continue to monitor his load management.