diff --git a/CMakeLists.txt b/CMakeLists.txt
index 125d3008fa..8d8f7c2532 100644
--- a/CMakeLists.txt
+++ b/CMakeLists.txt
@@ -915,6 +915,16 @@ endif()
 set( VERSION ${PROJECT_VERSION} )
 set( configure_input "Built with CMake ${CMAKE_VERSION}" )
 configure_file(${CMAKE_SOURCE_DIR}/cmakeconfig.h.in ${CMAKE_BINARY_DIR}/config.h)
+
+if(NOT "${CMAKE_SOURCE_DIR}" STREQUAL "${CMAKE_BINARY_DIR}")
+	# Try to run before anything else. Ideally we'd just use add_custom_command(... PRE_BUILD)
+	# but that only works for Visual Studio. As it is this likely has a race condition.
+	add_custom_target(clean_other_build_system_conflicts ALL
+		COMMAND ${CMAKE_COMMAND} -E remove ${CMAKE_SOURCE_DIR}/config.h
+		DEPENDS ${CMAKE_BINARY_DIR}/config.h ${CMAKE_BINARY_DIR}/version.h
+	)
+endif()
+
 set( IN_FILES
 	adns_dll.rc
 	capchild/doxygen.cfg.in