After the invasion of Naboo, Queen Amidala led the planet's rebuilding and recovery efforts. The process was slow as they did not seek external aid to recover from the damage of the conflict. Food surpluses recovered by the end of Amidala's term. Additionally, the Naboo had to decide whether or not to install defensive weaponry on the planet. This decision divided the Naboo. Queen Amidala decided to add an ion pulse cannon to the surface. Captain Panaka publicly opposed the addition of an ion pulse and advocated for firmer measures and increased defense. This divide caused a rift between Amidala and Panaka, a rift that would never heal. Amidala's parents were furious that Naboo installed any weaponry at all.

Every year following the invasion, the citizens of Naboo held a memorial for those who had fallen in defense of the planet. Amidala lit a stick of incense for Master Qui-Gon yearly.