2:26 - Darth Sidious (to Nix Card): "You will be protected; I can assure you." As Palpatine, he uses similar expressions talking to Mace Windu and addressing the senate in Revenge of the Sith ("And I assure you, the senate will vote to continue the war as long as Grievous is alive" [25:12] and "But I assure you, my resolve has never been stronger!" [1:35:16]) and talking to Luke in Return of the Jedi ("I assure you we are quite safe from your friends here" [1:32:08]). Qui-Gon also uses the expression in The Phantom Menace; after Queen Amidala says that Senator Palpatine fears the Trade Federation wants to destroy her, he replies, "I assure you I will not allow that to happen" [1:36:33].
6:56 - Darth Tyrannus (to Darth Sidious): "Of course, my lord, as you wish." An-other "as you wish."
7:05 - In his room, Anakin has a model of a Jedi starfighter, and it has a tripod stand that's similar to that of Luke's skyhopper model in A New Hope:
16:21 - Clovis (to the medical droid after it says someone wants to speak to him): "What are you talking about?" This line appears three times in A New Hope: twice, C-3PO asks R2-D2, "What are you talking about?" [6:51 and 9:47], and later, in response to Luke's urge to rescue Leia, Han Solo asks, "What are you talkin' about?" [1:11:03]. In Attack of the Clones, Anakin also asks Padmé, "What are you talking about?" [1:43:07].
18:17 - Clovis (after a Muun says, "We are indebted to Rush Clovis for his service to our people"): "Well, I have done only what I thought was right." This is similar to what Obi-Wan counsels Luke in A New Hope: "You must do what you feel is right, of course" [36:48].
18:46 - Padmé (to Clovis): "Good luck." In The Empire Strikes Back, an unidentified Rebel pilot wishes Luke good luck [36:02] and Luke wishes Lando good luck [2:00:09], and in Return of the Jedi, Han and Lando wish each other good luck [Han to Lando at 50:33 and Lando to Han at 52:21].