The Clone Wars - S3E12 - "Nightsisters"

17:00 - Ventress:  "I can smell his [Count Dooku's] stench a parsec away."  This is somewhat similar to what Leia says to Tarkin in A New Hope:  "I recognized your foul stench when I was brought on board" [57:17].

The Clone Wars - S3E11 - "Pursuit of Peace"

[I don't have anything to say about this episode yet, but I didn't want to skip over it.  This post is acting as a place holder, and I'll update it in the future if I find something to note.]

The Clone Wars - S3E10 - "Heroes on Both Sides"

The title of this episode comes from a line in the opening crawl of Revenge of the Sith:  "There are heroes on both sides."

5:12 - Padmé:  "If only I could talk to Senator Bonteri."

Ashoka:  "Who's he?"

Padmé:  "He is a she.  A senator in the Confederacy of Independent Systems."

This is the same sort of confusion that Obi-Wan and Anakin experience with Zam Wesell in Attack of the Clones.  Anakin explains:  "I think he is a she, and I think she's a changeling." [22:28].

5:44 - Ahsoka:  "Well, Master Skywalker and I hold what we call 'aggressive negotiations' all the time."  In Attack of the Clones, Anakin says to Padmé:  "And when I got to them, we went into aggressive negotiations" [53:01], which he explains means "negotiations with a lightsaber."  Padmé also uses the phrase later:  "I call it aggressive negotiations" [1:54:08].

8:06 - Battle droid:  "Move along, please.  Move along."  In A New Hope, a sandtrooper has a similar line when, prompted by Obi-Wan's influence through the Force, he directs Luke into Mos Eisley:  "Move along.  Move along." [43:51].

8:26 - Mina Bonteri (to Padmé):  "Hello, old friend."  She also calls her "my old friend" a bit later [12:25].  Perhaps coincidentally, this same phrase is applied to Obi-Wan in Attack of the Clones when Palpatine suggests him as protection for Padmé:  "an old friend, like Master Kenobi" [6:34].  Count Dooku also uses the phrase when he calls Mace Windu "my old Jedi friend" [1:50:24] and just "old friend" [1:56:05].  In Revenge of the Sith Obi-Wan says, "Goodbye, old friend" to Anakin as he leaves for Utapau [51:13], and Yoda refers to Qui-Gon as "an old friend" [2:09:56].  In A New Hope, Leia uses the phrase sarcastically to refer to stormtroopers when she says that she and Luke "ran into some old friends" [1:31:33]; in The Empire Strikes Back Yoda says that through the Force, Luke will see "Old friends long gone" [1:17:05]; and in Return of the Jedi Luke says, "I have a promise to keep to an old friend" [37:37], and Han calls C-3PO "an old friend of mine" [1:11:53].

13:18 - Visually, the Separatist Parliament seems to have been inspired by the British House of Commons:

20:27 - Padmé (about Mas Amedda's claim that the Separatists offered peace negotiations as a tactic to get the Republic to lower its defenses):  "No, that's not true."  Luke has a similar line in The Empire Strikes Back when Vader tells him about his father:  "That's not true.  That's impossible." [1:51:21].

The Clone Wars - S3E9 - "Hunt for Ziro"

13:52 - Obi-Wan:  "We must be cautious."  He also says this (to Luke) in A New Hope [42:44].