Courtney faced Zinnia, the spy she caught and sent Ninetales to battle her. However, Maxie let Zinnia fly off, for she did provide them with information on Groudon and the Red Orb.
Ninetales was sent out as Sapphire sent out her Chic and Rono. It defeated them as Sapphire was blinded by the Tamato Berry juice Courtney squirted in her eyes from her gloves. Courtney looked at Ninetales as Sapphire hid herself after she caused sand to surround them by punching the ground. When Ruby and Sapphire used Plusle and Minun they had befriended, the two used Double Team around Courtney, Tabitha and their Pokémon and electrocuted them. Courtney had Ninetales burn the doubles away. It gave a stern look at Plusle as Torkoal had it under its foot.
Ninetales was used as transport as Courtney, Tabitha and Blaise went to the shipyard at Slateport City on their Pokémon after temporarily staying in a cave with their boss, Maxie. When he woke up, Ruby saw Blaise and saw the Team Magma logo. Ruby remembered battling Tabitha and Courtney, as well as their Torkoal and Ninetales, all of whom belonged to the same organization.
Courtney, sat on Ninetales and accompanied by grunts, appeared to Ruby, Gabby and Ty outside of Rusturf Tunnel after they attacked it. She went to go and look for the Red Orb with Ninetales. While on Ninetales, she noticed Ruby and decided to change her plan. When she dragged Mumu and Ruby into the tunnel, she had Ninetales attack Ruby, with Ruby blocking the first attack with his PokéBlock Case and dodging the rest. Ninetales stopped its attack as Courtney showed Ruby their memories of their encounters. It stood behind her as Ruby sent out his Pokémon. It attacked everyone of his Pokémon with fire balls from its tails. Ninetales looked at Ruby as Courtney asked Ruby to join Team Magma, but once she asked this, a blast came from the rubble inside the cave, which caused them to fall back on themselves. As Ruby tried to make an escape, Courtney had Ninetales use Fire Spin. However, Ruby managed to fool Courtney to fall into Ninetales' flames. After they retreated, Gabby and Ty swore to find more about Courtney and Ninetales.
Ninetales was about to attack Roxanne while inside the Cove Lily Motel during the chaos by Groudon and Kyogre, but Roxanne brought out her Cradily. It stopped Ninetales in its tracks with its tentacles. Cradily fell over, but got back up and threw Ninetales against a screen. It threw fire balls, but it did nothing to Cradily as Cradily used Ingrainto regain strength. It looked at a screen as they all heard someone behind it. It knocked out Roxanne's Nosepass, who had previously use Block on Groudon to make it incapacitated.
In order to get their attention, Courtney and Ruby used Ninetales and Mumu to attack them with Hyper Beam and Muddy Water, which stopped them for a few moments, until they were attacked themselves.
- ^ R&S082: It All Ends Now III
- ^ ORAS007: Omega Alpha Adventure 6
- ^ R&S019: Adding It Up with Plusle & Minun II
- ^ R&S020: Tripped Up by Torkoal
- ^ R&S021: Slugging It Out with Slugma I
- ^ R&S039: What Would You Do for a Whismur?
- ^ R&S040: Going to Eleven with Loudred & Exploud I
- ^ R&S041: Going to Eleven with Loudred & Exploud II
- ^ R&S043: I More Than Like You, Luvdisc I
- ^ R&S042: Short Shift for Shiftry
- ^ R&S068: The Beginning of the End with Kyogre & Groudon X
- ^ R&S081: It All Ends Now II
- ^ FRLG029: It's Starting to Make Sense Now