Reproduction steps:
1. Create a new project
2. Create a GameObject (e.g. Cube)
3. Drag it into the Project window to create a Prefab
4. Duplicate newly created GameObject in the Hierarchy
5. Select both GameObjects and change one of their fields values (e.g. Scale X value)
6. Select one of GameObjects and apply Overrides in the Inspector (Overrides > Apply All)
7. Select another GameObject, open its Overrides dropdown and observe

Actual result: Override is possible, clicking on Transform shows that Prefab Source and Override has the same values
Expected result: Override is not possible as Prefab Source and Override has the same values and GameObject has no blue line next to the changed field and GameObject itself in Hierarchy

Reproducible with: 2021.3.56f1, 2022.3.66f1, 6000.0.58f1, 6000.2.6f1, 6000.3.0b2

Reproduced on: macOS Sequoia 15.4 (M4), Windows 11