Just watched Cloak of Deception this evening. It was a great watch. It had me really enjoying the film, I even laughed at the Jar Jar stuff since it was so unexpected in this edit.

A few possible critiques I have off of first viewing:

I’d imagine that for someone’s first time viewing of this, seeing R2D2 in it but giving him zero attention may come across strangely. CoD seems to act like he’s just a random astromech droid. It probably works better for tone and pacing to have it they way you do; but, I can’t help but feel 2-3 moments should be added back in for him. Especially since C3PO gets a few of his own moments. It’s not out of character for him to make a few snarky beeps, we see that in the OT.
The podracing scene is certainly improved from the original which just drags on, but this version still lags particularly in the middle of it. There seems to be no tension for a solid minute or two. I imagine it could still be shaved down a little. Perhaps, you could get rid of the ramp moment which seems outlandish; or, see below:
The other issue I have with the podracing is in the current cut, it’s extremely hard to follow what is happening, since each cut goes to a new location and focuses on a different racer for some portion of the race. It may be better to just have a quick reaction moment from Qui-gon and then skip to something interesting. If you would like me to go into specifics about where I think this problem is I can.
I think there should be some way of communicating that the command ship will shut down the droids, because it kind of comes out of no where. In this edit I even asked myself “why are they getting in the ships”. It has nothing to do with the plan they previously laid out, and it just seems like a coincidence that it deus ex machina’d them at the end. I do like how you connected that thread to saving Padme and the gang though. (tldr. A bit of exposition)
I have to admit, the climax didn’t quite work for me here. I feel the constant intercutting with the gungans and Padme, and Anakin, cheapens the Duel of the Fates, which is by far the best of the bunch. This may be a stretch: what if, instead of going back to the duel at 1:31:52 (just after Padme scales the wall), you just keep cutting between the other 3 plotlines. I think it would work really well to just keep it light-hearted for a bit. Resolve those 3, which are all directly connected. Then, once everything seems good, we come back to the duel and let it playout in one long sequence until its conclusion. It really plays into the tragedy of the scene, and contrasts more poetically with the rest instead of being undercut by the other parts.
I suggested 1:31:52 specifically because there’s a big gap in where they are dueling between what we saw before and that point, but I think it could work anywhere as long as the sequence from the red shields till the end is one long sequence. What are your thoughts on this? This is definitely the change I desire most.