Jenkins and Long are among several players who voiced support for former San Francisco 49ers quarterback Colin Kaepernick, who in 2016 began kneeling during the national anthem to protest police brutality and racial inequality.
It has been an American tradition following the Super Bowl that the winning team gets to visit the current president and the White House.
Instead, the event will feature the US Marine Band and the US Army Chorus.
Philadelphia Mayor Jim Kenney slammed President Trump for his decision Monday to disinvite the Philadelphia Eagles to the White House. The reason: the team won't promise that all players will stand with hand on heart for the national anthem.
US President Donald Trump has said no to the Eagles. "I'm skipping this political stunt at the White House and just invited the Eagles to Congress. @Eagles How about a tour of the Capitol?"
The optics of Trump standing in front of the cameras with less than one-fifth of the Eagles roster, would have been unacceptable.
The NFL decided last week that players must stand on the field during the national anthem - but gave them the option to remain in the locker room during the ceremony.
Trump's statement cited only the anthem issue - whether they would take a knee in protest during the song, for which the president has berated players.
After the league released a new Anthem policy, Trump doubled down on his comments and stated players who continue to protest should probably leave the country. Putting President Trump in an impossible position where he had to act.
Wide receiver Torrey Smith, who was a starter for the Eagles in the Super Bowl but now plays for the Carolina Panthers, tweeted that the anthem wasn't the only reason players were planning to boycott.
Among the members of the team who discussed boycotts were safety Malcom Jenkins, wide receiver Torrey Smith, and defensive end Chris Long, who skipped the event a year ago as a member of the Patriots.