The supersport competitor got off to a slower start in the first race, not helped by an incident involving three riders that red-flagged the race and reduced it to 10 laps and rain delaying the re-start.
Once racing was finally underway, championship leader Troy Guenther took the lead but soon enough, Clarke managed to push his Kawasaki machine to the limits, snatching two positions to take the race lead.
However, there were plenty of changes to the top four positions between laps four and 10, with Clarke conceding fourth position behind Mitch Levy, Callum Spriggs and Luke Mitchell, while Guenther slipped to fifth.
The second race was a wet one but it proved an advantage for Clarke who got off to a great start to take the lead before the race was red-flagged and again reduced to 10 laps.
When the race re-started, Clarke was again on the front foot, leading the pack until another crash stopped the race.
The race was declared with positions awarded at the lap six mark, with Clarke first from Spriggs and Robbie Menzies.
Clarke finished third for the day on 29.5 points giving him 111 points for the championship to retain second place.
Guenther still leads on 117, while Spriggs is third on 106.5. Round four comes to Barbagallo Raceway from June 3 to 5.