I didn't mind the episode overall but it wasn't the best. I just got a chance to watch it last night, and it set up a greater story and I'm leaving it at that basically.
The space battle had some "flaws" from a logic standpoint but I think with the time allotted that they did the best they could while keeping the action interesting. The Sep. ships were shieldless in the rear (an important plot point) when the AT-TE's attacked... I think time constraints made it necessary for the walkers to seem more powerful than perhaps they are... They did hit the engine quadrants though, a possible weak point on these ships, especially if they're unshielded.
The point about the bridge being taken out too... It seems to be a weak point for some ship designs doesn't it?

Really though, I thought the Trandoshan scrapper with his IG assassin droids was pretty great, and the "ploy" Ani and Ahsoka tried using on him to get an astromech was funny. It was neat seeing a fat Trandoshan ala the ones in Republic Commando too... Anyone at all catch that? He definitely reminded me of some of the slavers from the Rep Commando game.
The part about this episode that I really liked though, was what I talked about earlier... Anakin's, once again, strong attachment... Likewise I enjoy Obi-Wan's fairly heartless attitude towards R2. To him, R2's "just a droid", but to Ani he's clearly a companion and friend... He's getting impatient, angry... That, to me, is what's making this episode good. You're seeing Anakin, just like with his mother, and Padme, in the films, now getting upset over the loss of his droid... It has nothing to do with R2's memory (which he doesn't wipe because he actually cares about R2 and doesn't want to make him "droid dumb" I guess), but rather it has to do with his controlling dark nature. I love that... It's trying to build just how Anakin becomes Vader and fill in some of that, "Wow he turned into a prick right away" feeling you got out of the movies... It was a very long process, basically.
Now I'm curious to see this side story's conclusion... Obviously Anakin gets R2 back, but it'd be really interesting to see the Seps get some juicy info out of it, that helps them break through into the core worlds or something.