Reproduction steps:
1. Open the attached “BugReproduction.zip” project
2. Open the “Assets/Scenes/SampleScene.unity“ Scene
3. Enter the Play Mode
4. Exit the Play Mode
5. Save the Scene (CTRL+S)
6. Observe the Console window

Expected result: No errors are thrown
Actual result: “No objects were found for saving into prefab. Have you marked all objects with DontSave?” errors are thrown

Reproducible with: 2022.3.55f1, 6000.0.36f1, 6000.1.0b3, 6000.2.0a1

Reproducible on: Windows 11
Not reproducible on: No other environment tested