TheoOdo:
Here are my general comments. I will try to give them with the same... softness... that I would like to receive. :)
1. I too would like to get R2 and 3PO in the story as it's one of my oldest memories of what the prequels would be. "The droids will be the only characters in all 9 films" or some such. However, it's a rather sticky wicket since Obi-Wan shouldn't be the owner of the droids, and it seems really bad to have Darth Vader be their previous owner. So... who does that leave? I guess they can belong to Bail? Not sure, but I wouldn't go with Anakin.
2. It's nice to validate the Owen stuff, but I think it does more harm than good to "pop by Tatooine" just to keep up continuity. I think the PT should have no Tatooine in them, and generally as little revisiting here-to-fore seen planets as possible. I think the Owen stuff is ultimately unnecessary, and is forcing your story places it shouldn't go.
3. I really like the "Star Defender" name. How did you come up with it?
4. Similar to #2, I think you want to avoid Coruscant/Had Abaddon. The galaxy is a big place. Seeing "the centre" too much makes it feel much smaller. There is already way too much "galactic shrinkage" in Star Wars. My advice- never show the centre.
5. Generally- don't worry so much about explaining stuff. Yeah, Anakin should get a little pep talk about the force at some point in time. It should be introudced to the audience as if they don't know what it is. But you can certainly take it too far. Remember the failure of midichlorians.
More as I remember the thoughts I had while reading over it.