Again, I haven't been following Superman comics in a while, that was just my observation based on what I saw. A Clark that developed powers over time, rescued the crashing space plane, made Lois fall in love with him, these all seem to fit the pattern of the Byrne origin.
There does appear to be elements of the movies thrown in as well and that can't be a bad thing but remember
Man of Steel did that too. I guess I just don't like "cryptic" origins. It seems like they are trying to avoid another
Birthright fiasco by revealing stuff over time instead of all at once so old fans don't get upset. Which is a shame, I liked
Birthright!

I liked BR too, but I think the Busiek/Johns origin fits a little better. Not that it has to fit, since this isn't the post-Crisis Earth--it's New Earth. It just fits better for the sake of fans who have read the stories for a while. But if you're worried about BR being forgotten, don't be. It's hinted in the issue that there's a BR Earth out there. DC could essentially use a BR Earth to tell stories about their characters if they debuted in 2007. The implication I got from the issue is that almost every version of Superman exists somewhere in the multiverse. Kind of like Hypertime, but more functional and less metaphysical.
I like the "slow" reboot myself. It gives the writers a chance to not make mistakes. I want them to get this origin perfect. If that means taking their time, then so be it.
As for your observations:
1: In some interpretations the Silver Age Superman didn't have all of his powers at once. In some cases, the last power he learned was flight. And this Clark Kent, unlike the MOS version, already knows how to fly and use his more advanced powers at an early age. And this Clark was a member of the Legion as well.
2: The space plane doesn't really matter at all. Superman saving something that falls from the sky upon his debut is common. "Space plane" is just more science fictiony. Besides, Kal saved a space plane in BR too, if I recall. It just wasn't his debut rescue.
3: It's hinted that Lois fell in love with Clark because she sensed who he really was. Instead of seeing the mild-mannered image he presented to the world, she saw past that to "Smallville Clark."
From what I can tell--being a regular reader of the books for some time now--is that the new origin is an amalgamation of the Silver/Bronze Age, Donner movie, and some milestones (i.e. death and marriage) from the post-Crisis era. The dominant element seems to be the Donner movie, though. It seems like DC wants to blend every good idea ever inserted into the mythos into the New Earth version of Superman, while tossing out all the bad ones. It's "Superman Unbound" in a sense--unbound by the constraints which have limited the character for a long time.
As I said, check out #858. It might relieve some of the concerns you have.