Reproduction steps:
1. Open the attached project
2. Tools menu item "Build" -> "Build this"
3. Open the project folder and notice that "Build 1" file was created, delete both, this file and "Build 1_Data folder
4. Now open the Build.cs script and build path from "/Build 1" to "/Build 2" in line 10
5. Build again and notice that file and folder named "Build 1" was created despite the fact path was changed

Workaround: Building twice registers the path change

Reproduced on: 5.4.0b16, 5.3.4p4, 5.1.4f1