Reproduction steps:
1. Open the attached project "ReproProj"
2. Open the FindAssets window (NMY > Find Asset By GUID)
3. Drag and drop “/Assets/PrefabTest/P1.prefab“ to the “Search by reference” field
4. Observe that the “Search by GUID“ field is updated with “8d244ec4c93416a4cbf4cbbf664ebc55“
5. In the Project window, Right-click on “/Assets/PrefabTest/P1.prefab“ and click “Show in Explorer“
6. Without allowing Unity to refresh, In Explorer, delete “P1.prefab” and “P1.prefab.meta“
7. In Explorer, rename “P2.prefab“ and “P2.prefab.meta“ to “P1.prefab” and “P1.prefab.meta“
8. Click on Editor to refresh
9. Repeat steps 3-4
10. Open “P1.prefab.meta” in IDE
11. Observe GUID in 2nd line

Expected result: The “Search by GUID“ field shows the same GUID as the META file
Actual result: The GUID shown in the “Search by GUID“ field in the Editor differs from the GUID shown in the META file

Reproducible with: 2021.3.44f1, 2022.3.50f1, 6000.0.22f1

Testing environment: Windows 10 Enterprise 21H2
Not reproducible on: No other environment tested

Notes:
- Issue is still reproducible after Reporting the Prefab
- Modified date of Prefab is incorrect if these assets are VCS maintained

Workarounds:
- Reimport All
- Delete Library folder