The Springboks worked some trickery early from the lineout with a double jumper system as Ben-Jason Dixon passed it back to Eben Etzebeth, allowing Siya Kolisi to barge over at the back of the maul.
It set up a dominant first half for the world champions as they controlled the contest against an Australian side working hard in defence but struggling with discipline.
Willie Le Roux had a golden opportunity to extend the lead when he turned down a two man overlap but was taken down by Andrew Kellaway as the Wallabies scramble defence stood up.
They didn’t have to wait long as Pieter-Steph Du Toit crashed over the line in the 24th minute.
The first half went from bad to worse when Kellaway was yellow-carded for a lifting tackle on Cobus Reinach.
Minutes later, Arendse sliced through the gap for a 21-0 lead at the break
The Australians came out in the second half and kept pressing the South African line through Dylan Pietsch and Rob Valetini.
But every attack was met by a green wall that proved impenetrable.
It allowed the Springboks to slowly work their way back down the field and replacement Kwagga Smith crashed over to extend the lead.
Arendse followed him over two minutes later to seal the win.
A yellow card to Malcolm Marx for collecting Valetini in the head followed by Marco van Staden for repeated infringements opened the game up for the Wallabies late.
It allows Hunter Paisami to dive over untouched for a consolation try on a tough afternoon for the Wallabies.
Wallabies (15-1): Tom Wright; Andrew Kellaway, Len Ikitau, Hunter Paisami, Filipo Daugunu; Noah Lolesio, Jake Gordon; Harry Wilson, Carlo Tizzano, Rob Valetini; Lukhan Salakaia-Loto, Nick Frost, Allan Alaalatoa, Matt Faessler, Issac Kailea
Replacements: Josh Nasser, James Slipper, Zane Nonggorr, Jeremy Williams, Luke Reimer, Tate McDermott, Tom Lynagh, Dylan Pietsch
Springboks (15-1): Willie le Roux; Cheslin Kolbe, Jesse Kriel, Damian de Allende, Kurt-Lee Arendse; Sacha Feinberg-Mngomezulu, Cobus Reinach; Elrigh Louw, Ben-Jason Dixon, Siya Kolisi (captain), Pieter-Steph du Toit, Eben Etzebeth, Frans Malherbe, Bongi Mbonambi, Ox Nche
Replacements: Malcolm Marx, Gerhard Steenekamp, Vincent Koch, Salmaan Moerat, Marco van Staden, Kwagga Smith, Grant Williams, Handre Pollard
