Reproduction steps:
1. Create a New project
2. Exit and Re-Open Unity
3. Force Quit Unity before it properly starts
4. Run it in batch mode with these Command Line Arguments: "-batchmode -projectPath"
5. Notice a pop-up requiring manual input

Expected Result: No pop-up or manual input requiring actions can be prompted in batch mode
Actual Result: A pop-up appears in batch mode

Reproduced with: 2020.1.0a6, 2019.3.0b5, 2019.2.7f2, 2018.4.10f, 2017.4.32f1

Note:
Tested on MaOS HighSierra, doesn't affect Windows