Right off the bat, you ought to go read up on Masashi Kishimoto and all the work he did before he started on Naruto; there's a good summary on his Wikipedia entry. Keep in mind, also, that like a lot of manga artists he has assistants to help him out with things like inking and backgrounds. Working all on your own, writing and drawing, it's not realistic to expect to be able to match his output.
Before I ramble on too much, I'm also going to suggest some books that I'd consider required reading on the subject. You may have already read some or all of these, but they're the big ones:
You might also find The DC Comics Guide to Writing Comics useful, but I'm going to talk a big about the salient part of that here.
To answer a couple of your specific questions first, though:
Now when it comes to actually figuring out your pages and panels, you've got to start with your story. If you're working on your own stories, you're at an advantage; you don't have to do a full script, like the ones on that page I linked above. You can just do a plot-first script. Basically, it's just a rough outline, page by page, of what happens.
That's how Stan Lee used to write all those comics for Marvel back in the day. He'd sit down and hammer out a plot, usually just sitting there with the artist in his office, and send them off to pencil it. Then they'd give the penciled pages back to him and he'd figure out dialog to match their drawings, scribbling it in in pencil. Then it'd go to the letterer, then the inker, then the colorist.
That's about all I've got time for tonight. Hope some of that helps.