Both of those concerns are expounded upon in Ep2’s commentary, but since it isn’t out yet, let me do so here in brief. The Tusken confession scene is gone primarily because of what it does to Padme’s character. She hears that Anakin commits genocide, killing women and children, and doesn’t care; she goes along with Anakin anyway. (This was especially problematic in AOTC, where at this point they weren’t together!) In Episode III, Padme learns that Anakin once again has killed children, and suddenly her heart is broken and she can’t go along with Anakin like she did when he did the same thing before. Also in Episode III, Palpatine references Anakin’s Tusken slaughter, giving us some characterization of Anakin as being willing to confide his dark secret to Palpatine but not to Padme. Plus, it’s a painfully awkward scene. (Cliegg’s funeral monologue is kept in order for the scene transition from Anakin arriving with Schmi’s body to function better. Seemed abrupt to wipe straight into Anakin walking up to the tombstone. Cliegg’s dialogue establishes the scene.)
The droid factory sequence is garbage IMHO. It was cobbled together in post-production, uses random music tracks from elsewhere in the film (including Yoda’s theme), and feature’s Anakin once again losing the use of his lightsaber. (Not to mention the Threepio antics and R2 flying.) I do not harbor any love for that sequence, so instead we get Anakin going along with Padme as she elects to try a diplomatic approach. It seems like what we get in the deleted scene is pretty much what Padme hoped to try to do before stumbling onto a big action setpiece.
Although, I went ahead and silenced the dialogue as Padme looks out her family’s kitchen window as you suggested; very good idea.