Have you evaluated your sitting position?
Establishing a better sitting position will help address the issue.
Have someone watch your squat technique to identify if there are any deviations in technique.
Episode 318: Knee Pain On Stairs or Hills
Episode 251: High Skilled Sitting/Abdominal Bracing
Episode 187: Death by Chair. How Much Do Actually Sit?
Episode 91: Mobilize In the Position of Death by Chair