Prefab Variant in Project view still shows changes made and applied in the Hierarchy/Sciene view

To reproduce:

• Open Unity Hub and create the New Project;
• Create Prefab in the Hierarchy window;
• From Prefab in the Hierarchy window make a Prefab Variant;
• Made some changes to Prefab Variant in the Hierarchy window and Apply those changes to it;
• Observe that those changes are applied in the Hierarchy window;
• Select the Prefab Variant in the Project view;

Expected result: In the Project view Prefab Variant doesn't show any made changes;
Actual result: In Project view, Prefab Variant shows every made change - component was Added, Removed, or Modified;

Notes:

• With the Standard/Original Prefab this issue does not happen;
• From the Project view you can still have the option to Revert changes made in the Hierarchy/Scene view;
• This behavior also sometimes happens when applying Prefab Variant changes to the Parent Prefab - Parent Prefab doesn't show anything, but Prefab Variant still shows changes that were made and applied;

Reproducible in Unity 2020.3.41f1, 2021.3.13f1, 2022.1.22f1, 2022.2.0b12, and 2023.1.0a18