Well, it's makes sense to me to have the riders be members of the Federation Force and to follow Samus around and try to help her than to have them all pretend to be Samus. They could just have a ride where you are just following Samus, but having the riders be members of the Federation Force and shooting at stuff might be more engaging.
They wouldn't need to say it's based on the game. They could play down the Federation Force part in the title, theming, and marketing; but still have them be part of the attraction.
Another idea I had is that the ride could be Super Mario Sunshine like you are given water 'jetpack' like he has in the game, but also a visor for some reason. Maybe it's about Iron Man like other have said or maybe some old game that came out on a Nintendo system, possibly exclusively on that system, in the past.