The negotiations between Amidala and the gungan leaders are shown (according to all the materials in our possession) most accurately, although somewhat shortened. Actually, they lasted for about two days, during which the sides worked out the basics of the planetary management after the war and the distribution of profits from "gugni" trade.
The film likewise reflects quite precisely the plan of the guards' raid on the palace under the leadership of Amidala herself and the divertive attack of the gungans on the planetary capital – the city of Naboo. Certain inaccuracies, including hovering tanks (war machines on repulsors were still rare at the time), droids using binoculars and communicating with voice, shield generators mounted on animals and other things inserted into the film for show do little to change the course and the results of the battle (the complete defeat of the gungan army).
The raid on the palace is shown close to the truth. During the battle three (not two, as shown in the film) groups of guards manage to enter the palace. Unlike in the film, all three groups had separate objectives; capturing the TF representatives, the comm center and the hangars. The Jedi were indeed part of the last group (since hangars were the most important for the mission overall) but Amidala was not. Likewise, Anakin's participation in the assault is a complete fiction, since he was at the time in a boarding school on Coruscant.
Naturally, his role in destroying the TF orbital base is likewise a myth. According to the records at hand, it was indeed destroyed by one of Naboo pilots who managed to get his fighter through one of the auxiliary locks and, overriding the security systems of his ship, engage the hyperdrive. The following kinetic explosion destroyed a large portion of the station, including the Command Center and a number of energy system circuits.
Nevertheless, the scene shown in the movie, of all the droids shutting down after that is absolutely ridiculous. Even the Trade Federation was not foolish enough to use completely remotely controlled automatons in a planetary war. In fact, the destruction of the space base contemporized with the defeat of the gungan army and the panic flight of the remaining warriors (about 42 per cent of the initial number, 35 per cent more were wounded and later found on the battlefield). As a result, the ground command center, receiving no orders to pursue, concluded that their mission was complete and started the standard procedures of preparing for evacuation, including "packing up" the droids, getting the transports to points suitable for landing, organizing the protection and transmitting a request for transport ships. Since the TF communications were indeed transmitted through the station, the droid army was never evacuated and has been destroyed the next day by an air attack.