When Sun was locked in the room at the airport, Widmore told her "they only do what I tell them".

Was he referring to the guards or to Oceanic?

I'm thinking Oceanic since Widmore had Sun's passport flagged.

I thought the same thing intially. Either that or he just used his money and power to gain control over the operation for the time being.

Yes he owns it. It's also how he could stage a fake wreck and probably arrange the real one.

Seems plausible that he owns the airline or at least has a finger in the pie of Oceanic Airlines.

Speaking of Oceanic, and not meaning to hijack your thread...but what's up with Ajira Airways and that website? Anything happening there yet. I can't get anything out of it.