Continuity mistake: In Geheimhaven, Indy watches the submarine hidden behind some ropes. When Marion comes out of the submarine and the camera focuses on the back of Indy's head, the ropes disappear. (01:39:13)
Continuity mistake: As the sergeant climbs to the truck's roof, Belloq turns his head to watch the scene. In that shot, the staff car is passing next to a group of plants. In the next shot, almost all the plants have disappeared. (01:26:55)
Continuity mistake: When Indy runs over the sergeant, the background behind the truck changes between shots, going from the desert to a mountain. (01:28:45)
Continuity mistake: Dietrich and Gobler walk forward to stand next to Belloq while he's saying, "Once again, Jones..." In the next shot, Gobler has disappeared (this can be spotted by the distance between Belloq and Gobler's foot in the first shot). (01:10:57)
Continuity mistake: As Gobler's jeep is returning to the road after being hit by Indy, Gobler's goggles move from his eyes to his cap between shots.
Continuity mistake: At the beginning of the Truck Chase, when Billy Horrigan starts shooting at Indy, Reg Harding's right hand goes from grabbing the front passenger seat to grabbing the metal bar of the jeep between shots. (01:23:28)
Continuity mistake: In the canyon, in the shot of Toht, just before Belloq says "Do as you will", everyone in the background (Marion and her two guards, Dietrich, some soldiers) is gone (taking as reference the giant stone behind Belloq and the characters' positions in the previous and next shots). (01:43:49)
Continuity mistake: Dietrich asks, "If we refuse?" Next to him stand four soldiers in a row, looking at Indy. In the next shot, the soldier who was holding a rifle is gone, and the two with machine guns are now giving their backs to Dietrich. (01:42:52)
Continuity mistake: When Dietrich and Toht look at the ghosts that pass behind them, the column of mist that is coming out of the Ark disappears.
Continuity mistake: When Indy is entering Marhala Bar, Steve Hanson is right behind him, following Indy inside. In the next shot, Steve is suddenly standing next to Belloq (he seems to have arrived before Indy did). (00:43:08)
Continuity mistake: In the Bantu Wind, the right arm of the soldier standing next to where Indy is hiding changes its position twice during Katanga's and Dietrich's speech. (01:36:18)
Continuity mistake: As Dietrich and Gobler come into the tent, Toht's leather case can be seen already opened. In the next shot, the case is suddenly closed.
Continuity mistake: While the Holy Fire is killing the soldiers, in a shot of two soldiers being hit by the light, the stone wall is missing in the background of the scene. (01:47:30)
Continuity mistake: When Marion arrives on the deck of the Bantu Wind, Dietrich turns to look at her. Katanga is in the background, behind the colonel. But, just before Marion hits Dietrich, Katanga appears on the opposite side from where he was and catches Marion. (01:36:00)
Continuity mistake: When the gunfight at The Raven begins, the Ratty Nepalese crawls next to two tables (one of them has the medallion and the log). He knocks down the one without the medallion, but in the next shot, the knocked down is the one that has the log and the medallion. (00:31:10)
Continuity mistake: During the procession, after Indy hides behind the box, Captain Mohler can be seen walking with the soldiers behind the Ark. In the next shot, he's walking in front of the Ark.
Continuity mistake: In the first scene of the procession, the Nazis are walking in a straight line along a path. In the next shot, they are now going around a curve.
Continuity mistake: After the kliegs behind Dietrich, Belloq, and Toht explode, the Ark's energy begins to destroy the soldiers' guns and the kliegs next to them. In some shots, the kliegs on the altar are still working.
Continuity mistake: Just before Belloq says "It's beautiful!", there is a black machine (which is not the German camera or the generator) in the bottom middle of the screen, just below the approaching ghost. It is also visible when the Angel of Death is revealed. This machine disappears when the Ark begins to kill the soldiers.
Continuity mistake: When the camera shows the back of the truck, there are two soldiers on each side of the truck, plus the sergeant inside it. As there were seven soldiers and one of them fell off the truck - there's a missing soldier in the scene. (01:25:50)
Answer: The scene you describe was indeed filmed. It was cut out of the US release of the film although I cannot speak for the Australian version. The scene also appears in the Marvel Comics adaptation. http://www.theraider.net/films/raiders/deleted_scenes.php has a list of this and the other deleted scenes.
Phil C.