How to reproduce:
1. Open the “IN-98533_Unity Project” project
2. Open "SampleScene"
3. In the Hierarchy select "Root" GameObject
4. Right click on it and select Prefab > Reconnect Prefab
5. Observe the "Root" GameObject

Expected result: Reconnecting a prefab keeps child Prefab connections
Actual result: Child Prefab connections are lost when reconnecting Prefab (child GameObject "Cube" Prefab instance is disconnected)

Reproducible with: 2022.2.21f1, 2022.3.61f1, 6000.0.45f1(d99c8ca127be), 6000.1.0b14, 6000.2.0a8
Could not test in: 2021.3.50f1. 2022.1.0a1, 2022.1.24f1 (Prefab option is not available)

Reproducible on: Windows 11(24H2)
Not reproducible on: No other environment tested

Note: Selecting the “Root” Prefab will show that the Cube Prefab instance is now just a basic GameObject