Heroes who have a card that allows them to reveal enemies with weapon shots are extremely strong against Skye. For example, Viktor's Predator card allows him to reveal targets for half a second every time they get hit by Iron Sights.
Viktor can easily penetrate this front liner's shield, and his grenade has a big enough radius to damage anyone behind Barik's shield. Also, Barrage can easily be used as a flank Ultimate like Skye's, and can kill Barik's team if they are close.
Ruckus easily rips through Androxus, and even if he tries to use Reversal, Ruckus can activate his shields to negate any damage fired back at him, and if Androxus tries to escape, Ruckus can easily jet over to him.
Maeve has a particularly harder time than most champions with aiming, as her weapons have drastic gravity drop, and have projectile speed, which means moving around unpredictably will make yourself harder to kill.
These two champions both counter each other in different ways. Kinessa can deal killing blows to Skye, while Skye can escape Kinessa's line of sight and easily murder her. When playing as Kinessa, put as much distance from yourself and Skye.