2:43 - Lama Su (after Obi-Wan explains that there may be a Separatist attack on Kamino): "But the Republic blockade is far too strong. They would not dare." In The Phantom Menace, Sio Bibble says the same thing after Qui-Gon tells Amidala that the Trade Federation will kill her if she stays on Naboo: "They wouldn't dare!" [23:36].
4:10 - General Grievous: "Commence attack!" Admiral Ackbar has a similar line in Return of the Jedi: "Commence attack on the Death Star's main reactor!" [1:54:46]
7:49 - Screenshots don't really do this justice, so I won't include them, but this shot of Obi-Wan riding an aiwha and emerging from beneath the ocean is very similar to a shot of a Kaminoan doing the same thing in Attack of the Clones [50:18].
14:31 - Battle droid (knocking on a door): "Open up!" This is similar to a situation in A New Hope where a stormtrooper knocks on the door of the room where C-3PO and R2-D2 are hiding and says, "Open up in there! Open up in there!" [1:17:57], just from the opposite perspective.