Steps to repro:

1. Open attached project and 'Albedo' scene;
2. Clear GI cache and baked data;
3. Select QA>Lightmaps>Bake Build Settings Scene;
4. Click 'Yes' button;
5. Wain until baking is finished;
6. Open 'Albedo' scene;
7. In the Scene view select expand editor visualization dropdown and choose 'Albedo'.

Expected result:
The bottom plane's albedo map is rendered (it's multi-colored).

Actual result:
The plane is shown black and white. See attached video.
The workaround is to bake the scene individually.

Notes:
- Reproducible in 2018.2.0a2, 2018.1.0b10, 2017.3.0p2;
- Reproducible on Windows 10.
- Reproducible only when batch baking scenes with Lightmaps.Bake, not reproducible when baking scenes individually.