So 4.13 has fixed this error for me, but now another error has taken place. After working on the foliage for one of the previously affected maps and saving it again, re-opening it causes it to crash shortly after it has been loaded (unlike previously when it would crash before loading with the 4.12 error) I get a Critical Error, but I’m not sure what to make of it, I’ll paste it here for reference. (With one point in bold that seems to be the cause as far as I can tell.)
[2016.09.16-12.58.54:827][ 13]LogCrashTracker:
[2016.09.16-12.58.54:827][ 13]LogWindows:Error: === Critical error: ===
[2016.09.16-12.58.54:827][ 13]LogWindows:Error:
[2016.09.16-12.58.54:827][ 13]LogWindows:Error: Assertion failed: Canary != FShader::ShaderMagic_CleaningUp [File:D:\Build++UE4+Release-4.13+Compile\Sync\Engine\Source\Runtime\ShaderCore\Private\Shader.cpp] [Line: 440]
[2016.09.16-12.58.54:827][ 13]LogWindows:Error:
[2016.09.16-12.58.54:827][ 13]LogWindows:Error:
[2016.09.16-12.58.54:827][ 13]LogWindows:Error:
[2016.09.16-12.58.54:827][ 13]LogWindows:Error: KERNELBASE.dll
[2016.09.16-12.58.54:827][ 13]LogWindows:Error: UE4Editor-Core.dll
[2016.09.16-12.58.54:827][ 13]LogWindows:Error: UE4Editor-Core.dll
[2016.09.16-12.58.54:827][ 13]LogWindows:Error: UE4Editor-Core.dll
[2016.09.16-12.58.54:827][ 13]LogWindows:Error: UE4Editor-ShaderCore.dll
[2016.09.16-12.58.54:827][ 13]LogWindows:Error: UE4Editor-ShaderCore.dll
[2016.09.16-12.58.54:827][ 13]LogWindows:Error: UE4Editor-ShaderCore.dll
[2016.09.16-12.58.54:827][ 13]LogWindows:Error: UE4Editor-Renderer.dll
[2016.09.16-12.58.54:827][ 13]LogWindows:Error: UE4Editor-Renderer.dll
[2016.09.16-12.58.54:827][ 13]LogWindows:Error: UE4Editor-Renderer.dll
[2016.09.16-12.58.54:827][ 13]LogWindows:Error: UE4Editor-Renderer.dll
[2016.09.16-12.58.54:827][ 13]LogWindows:Error: UE4Editor-Engine.dll
[2016.09.16-12.58.54:827][ 13]LogWindows:Error: UE4Editor-Engine.dll
[2016.09.16-12.58.54:827][ 13]LogWindows:Error: UE4Editor-Engine.dll
[2016.09.16-12.58.54:827][ 13]LogWindows:Error: UE4Editor-Engine.dll
[2016.09.16-12.58.54:827][ 13]LogWindows:Error: UE4Editor-Engine.dll
[2016.09.16-12.58.54:827][ 13]LogWindows:Error: UE4Editor.exe
[2016.09.16-12.58.54:828][ 13]LogWindows:Error: UE4Editor.exe
[2016.09.16-12.58.54:828][ 13]LogWindows:Error: UE4Editor.exe
[2016.09.16-12.58.54:828][ 13]LogWindows:Error: UE4Editor.exe
[2016.09.16-12.58.54:828][ 13]LogWindows:Error: UE4Editor.exe
[2016.09.16-12.58.54:828][ 13]LogWindows:Error: KERNEL32.DLL
[2016.09.16-12.58.54:828][ 13]LogWindows:Error: ntdll.dll
[2016.09.16-12.58.54:828][ 13]LogWindows:Error: ntdll.dll
[2016.09.16-12.58.54:828][ 13]LogWindows:Error:
[2016.09.16-12.58.54:845][ 13]LogExit: Executing StaticShutdownAfterError
[2016.09.16-12.58.54:916][ 13]LogWindows: FPlatformMisc::RequestExit(1)
[2016.09.16-12.58.54:917][ 13]Log file closed, 09/16/16 13:58:54