In the first of the back-to-back qualifying sessions it was Waters that led the way from start to finish.
The Tickford driver was fastest on the first runs with a 1m05.620s before improving to a 1m05.255s at the flag to seal pole.
The margin back to David Reynolds was just 0.04s as Will Davison and Shane van Gisbergen locked out the second row.
Race 1 winner Anton De Pasquale could manage just fifth on the grid for Race 2 while Broc Feeney showed significant improvement compared to yesterday's qualifying as he secured seventh on the grid.
Jack Le Brocq, Chaz Mostert and Mark Winterbottom completed the first five rows.
The second session saw Davison lower his own lap record to take pole for Race 3.
The veteran stormed to the top with a 1m04.811s which left him nearly two-tenths clear of De Pasquale in a Dick Johnson Racing front-row lock-out.
"Conditions were tricky," said Davison. "[I went out] out thinking it would be super grippy with the cooler conditions, but I'm not sure if it was the S5000 rubber, there's quite a bit of dirt on the circuit, the first run caught me by surprise a little bit.
"I didn't quite get the tyres up in the first sector. I knew I had to alter my warm-up procedure for that run and I could feel starting the lap the tyres were there.
"I tried to replicate the Shootout lap from yesterday. I think it was possibly a little bit better in some spots."
Feeney put in a starring performance to grab third ahead of Waters, while van Gisbergen's relatively underwhelming morning continued with fifth.
Mostert was sixth from Scott Pye, Will Brown, Jake Kostecki and Andre Heimgartner.
Darwin Triple Crown Race 2 qualifying results
| Cla | # | Driver | Car | Time | Gap | Interval |
|---|---|---|---|---|---|---|
| 1 | 6 |  Cameron Waters | Ford Mustang GT | 1'05.2552 | ||
| 2 | 26 | David Reynolds | Ford Mustang GT | 1'05.3020 | 0.0468 | 0.0468 |
| 3 | 17 | Will Davison | Ford Mustang GT | 1'05.3637 | 0.1085 | 0.0617 |
| 4 | 97 |  Shane van Gisbergen | Holden Commodore ZB | 1'05.4014 | 0.1462 | 0.0377 |
| 5 | 11 | Anton De Pasquale | Ford Mustang GT | 1'05.4235 | 0.1683 | 0.0221 |
| 6 | 8 | Andre Heimgartner | Holden Commodore ZB | 1'05.5035 | 0.2483 | 0.0800 |
| 7 | 88 | Broc Feeney | Holden Commodore ZB | 1'05.5210 | 0.2658 | 0.0175 |
| 8 | 34 | Jack Le Brocq | Holden Commodore ZB | 1'05.5550 | 0.2998 | 0.0340 |
| 9 | 25 | Chaz Mostert | Holden Commodore ZB | 1'05.5601 | 0.3049 | 0.0051 |
| 10 | 18 | Mark Winterbottom | Holden Commodore ZB | 1'05.6221 | 0.3669 | 0.0620 |
| 11 | 14 | Bryce Fullwood | Holden Commodore ZB | 1'05.7047 | 0.4495 | 0.0826 |
| 12 | 2 | Nick Percat | Holden Commodore ZB | 1'05.7115 | 0.4563 | 0.0068 |
| 13 | 20 | Scott Pye | Holden Commodore ZB | 1'05.7241 | 0.4689 | 0.0126 |
| 14 | 55 | Thomas Randle | Ford Mustang GT | 1'05.7365 | 0.4813 | 0.0124 |
| 15 | 56 | Jake Kostecki | Ford Mustang GT | 1'05.7612 | 0.5060 | 0.0247 |
| 16 | 4 | Jack Smith | Holden Commodore ZB | 1'05.7613 | 0.5061 | 0.0001 |
| 17 | 35 | Todd Hazelwood | Holden Commodore ZB | 1'05.7838 | 0.5286 | 0.0225 |
| 18 | 10 | Lee Holdsworth | Ford Mustang GT | 1'05.8948 | 0.6396 | 0.1110 |
| 19 | 9 | Will Brown | Holden Commodore ZB | 1'05.9122 | 0.6570 | 0.0174 |
| 20 | 5 | James Courtney | Ford Mustang GT | 1'05.9432 | 0.6880 | 0.0310 |
| 21 | 3 | Tim Slade | Ford Mustang GT | 1'05.9476 | 0.6924 | 0.0044 |
| 22 | 76 | Garry Jacobson | Holden Commodore ZB | 1'05.9499 | 0.6947 | 0.0023 |
| 23 | 99 | Brodie Kostecki | Holden Commodore ZB | 1'05.9578 | 0.7026 | 0.0079 |
| 24 | 22 | Chris Pither | Holden Commodore ZB | 1'05.9910 | 0.7358 | 0.0332 |
| 25 | 96 | Macauley Jones | Holden Commodore ZB | 1'06.0044 | 0.7492 | 0.0134 |
| 26 | 27 | Jayden Ojeda | Holden Commodore ZB | 1'06.0858 | 0.8306 | 0.0814 |
| 27 | 78 | Zak Best | Ford Mustang GT | |||
| View full results | ||||||
Darwin Triple Crown Race 2 qualifying results
| Cla | # | Driver | Car | Time | Gap | Interval |
|---|---|---|---|---|---|---|
| 1 | 17 | Will Davison | Ford Mustang GT | 1'04.8114 | ||
| 2 | 11 | Anton De Pasquale | Ford Mustang GT | 1'05.0104 | 0.1990 | 0.1990 |
| 3 | 88 | Broc Feeney | Holden Commodore ZB | 1'05.0548 | 0.2434 | 0.0444 |
| 4 | 6 | Cameron Waters | Ford Mustang GT | 1'05.1670 | 0.3556 | 0.1122 |
| 5 | 97 | Shane van Gisbergen | Holden Commodore ZB | 1'05.2320 | 0.4206 | 0.0650 |
| 6 | 25 | Chaz Mostert | Holden Commodore ZB | 1'05.2383 | 0.4269 | 0.0063 |
| 7 | 20 | Scott Pye | Holden Commodore ZB | 1'05.4436 | 0.6322 | 0.2053 |
| 8 | 9 | Will Brown | Holden Commodore ZB | 1'05.4634 | 0.6520 | 0.0198 |
| 9 | 56 | Jake Kostecki | Ford Mustang GT | 1'05.4738 | 0.6624 | 0.0104 |
| 10 | 8 | Andre Heimgartner | Holden Commodore ZB | 1'05.5291 | 0.7177 | 0.0553 |
| 11 | 18 | Mark Winterbottom | Holden Commodore ZB | 1'05.5436 | 0.7322 | 0.0145 |
| 12 | 26 | David Reynolds | Ford Mustang GT | 1'05.5513 | 0.7399 | 0.0077 |
| 13 | 34 | Jack Le Brocq | Holden Commodore ZB | 1'05.5609 | 0.7495 | 0.0096 |
| 14 | 55 | Thomas Randle | Ford Mustang GT | 1'05.5970 | 0.7856 | 0.0361 |
| 15 | 10 | Lee Holdsworth | Ford Mustang GT | 1'05.6121 | 0.8007 | 0.0151 |
| 16 | 2 | Nick Percat | Holden Commodore ZB | 1'05.6260 | 0.8146 | 0.0139 |
| 17 | 3 | Tim Slade | Ford Mustang GT | 1'05.6450 | 0.8336 | 0.0190 |
| 18 | 35 | Todd Hazelwood | Holden Commodore ZB | 1'05.6672 | 0.8558 | 0.0222 |
| 19 | 5 | James Courtney | Ford Mustang GT | 1'05.6744 | 0.8630 | 0.0072 |
| 20 | 14 | Bryce Fullwood | Holden Commodore ZB | 1'05.6956 | 0.8842 | 0.0212 |
| 21 | 22 | Chris Pither | Holden Commodore ZB | 1'05.7251 | 0.9137 | 0.0295 |
| 22 | 96 | Macauley Jones | Holden Commodore ZB | 1'05.7652 | 0.9538 | 0.0401 |
| 23 | 27 | Jayden Ojeda | Holden Commodore ZB | 1'05.7812 | 0.9698 | 0.0160 |
| 24 | 99 | Brodie Kostecki | Holden Commodore ZB | 1'05.8086 | 0.9972 | 0.0274 |
| 25 | 4 | Jack Smith | Holden Commodore ZB | 1'05.8431 | 1.0317 | 0.0345 |
| 26 | 76 | Garry Jacobson | Holden Commodore ZB | 1'05.8522 | 1.0408 | 0.0091 |
| View full results | ||||||
