My idea, which I have stated before (previous thread I think), was to set the film up like the Thor movie. Starting it with her being Captain Marvel (so the audience knows she is the star) then flashback to her without powers and a pilot/SHIELD/SWORD agent. She meets Captain Mar-Vell and she helps him fight the rogue Kree soldiers led by Yon-Rogg. The stuff with her having no powers but still showing she is a great fighter would show her heroism doesn't just come from the powers. In trying to stop their ultimate weapon, the Kree Sentry robot, Mar-Vell sacrifices his life but in tern gives his powers (super advanced high tech Kree armor) to Carol. She then becomes Captain Marvel and stops the Kree robot for good.
I think the Kree should also be hinted at having a greater involvement in Earth too, it wasn't accident that they arrived on Earth of all places. And that would set up possibilities for sequels for Captain Marvel.
(also in my idea the powers are transfered to her when Mar-Vell gives her his Kree armor. When she finally puts it on it rewrites her DNA and gives her powers. Its sort of like a super advanced alien version of Iron Man's already advanced armor.)
This way it starts with her as Captain Marvel with powers, second half of film has no powers, last half of film has powers. Like in Thor, film started out with Thor having powers fighting Frost Giants, then he was sent to Earth and had no powers, then last half of movie he had powers and fought the Destroyer and Loki.
I also like the idea of introducing her as an Agent of SWORD (a devision of SHIELD that monitors for aliens) in another film like the Avengers 2 or 3 or Ant Man or Iron Man 3 or Captain America 2 or 3, Thor 2, etc. Because its only natural that SHIELD would start a devision that would monitor for aliens, Fury himself said that they started creating weapons to combat aliens and super beings because of Thor (a powerful alien). So why not show the next logical step, Fury and SHIELD created a branch that would monitor for aliens and be ready to fight them, first line of defense against an invasion. So she would be introduced in another film as Carol Danvers, Agent of SHIELD and SWORD and a US Pilot, and a Captain. She could get some minor screen time only to get more later on when she gets her own film.
Just a few ideas drawn out here.