The Clone Wars - S5E20 - "The Wrong Jedi"

4:18 - Yoda:  "Clouded by the dark side these things are, Padawan Tano, dangerously clouded."  This is somewhat similar to what he says in Attack of the Clones:  "The dark side clouds everything" [5:00].

6:09 - Padmé (to Anakin):  "Wait, where are you going?"  Owen asks, "Where are you going?" of Anakin in Attack of the Clones [1:13:42] and of Luke in A New Hope [25:09].

10:54 - Ventress (after Anakin says that she was the only one Ahsoka had talked to):  "That's not true."   Luke says the same thing in The Empire Strikes Back when Vader tells him about his father:  "That's not true.  That's impossible." [1:51:21].

13:04 - Barriss Offee (referring to Ahsoka):  "I was only trying to help her."  Probably just coincidentally, Han uses this same expression after Leia rebuffs him while working on the Millennium Falcon in The Empire Strikes Back:  "Hey, your worship, I'm only tryin' to help" [51:00].

17:56 - Chancellor Palpatine (to clone troopers, referring to Barriss):  "Take her away."  In The Phantom Menace, Nute Gunray commands, "Take him away," to a pair of battle droids, referring to Sio Bibble [1:18:19], and in Attack of the Clone, Jango Fett says, "Take him away" to battle droids, referring to Anakin [1:42:30].

18:21 - Anakin:  "Ahsoka, I'm so sorry about everything."  In Revenge of the Sith, Obi-Wan also tells Padmé, "I'm so sorry" [1:40:30].