According to this, you have to compile without -NoEngineChanges
. On linux the command will look like /path/to/UnrealEngine/Engine/Build/BatchFiles/Linux/RunMono.sh /path/to/UnrealEngine/Engine/Binaries/DotNET/UnrealBuildTool.exe Development Linux -Project=/path/to/MyProject/MyProject.uproject -TargetType=Editor -Progress -NoHotReloadFromIDE
. Uncomfortable but works as a temporary fix.