diff --git a/cmake/QtBaseGlobalTargets.cmake b/cmake/QtBaseGlobalTargets.cmake
index 1244ef4baf4..029546fd65d 100644
--- a/cmake/QtBaseGlobalTargets.cmake
+++ b/cmake/QtBaseGlobalTargets.cmake
@@ -85,7 +85,7 @@ if(QT_WILL_INSTALL)
     endforeach()
 endif()
 
-set_property(DIRECTORY APPEND PROPERTY CMAKE_CONFIGURE_DEPENDS
+_qt_internal_append_cmake_configure_depends(
     "${CMAKE_CURRENT_SOURCE_DIR}/cmake/QtBuildInternals/${__build_internals_standalone_test_template_dir}/CMakeLists.txt"
     ${__build_internals_extra_files}
 )
diff --git a/cmake/QtModuleHelpers.cmake b/cmake/QtModuleHelpers.cmake
index b1115d61e8f..2f260d90f04 100644
--- a/cmake/QtModuleHelpers.cmake
+++ b/cmake/QtModuleHelpers.cmake
@@ -807,7 +807,7 @@ set(QT_ALLOW_MISSING_TOOLS_PACKAGES TRUE)")
         )
 
         # Make sure touched extra cmake files cause a reconfigure, so they get re-copied.
-        set_property(DIRECTORY APPEND PROPERTY CMAKE_CONFIGURE_DEPENDS "${cmake_file}")
+        _qt_internal_append_cmake_configure_depends("${cmake_file}")
     endforeach()
     list(APPEND extra_cmake_includes ${arg_EXTRA_CMAKE_INCLUDES})
 
diff --git a/cmake/QtPublicCMakeHelpers.cmake b/cmake/QtPublicCMakeHelpers.cmake
index 43c744905f0..2027a06174e 100644
--- a/cmake/QtPublicCMakeHelpers.cmake
+++ b/cmake/QtPublicCMakeHelpers.cmake
@@ -956,3 +956,15 @@ function(_qt_internal_is_c_identifier out_var value)
         set(${out_var} "FALSE" PARENT_SCOPE)
     endif()
 endfunction()
+
+# Makes appending of the CMake configure time dependencies unique.
+function(_qt_internal_append_cmake_configure_depends)
+    get_property(configure_depends DIRECTORY PROPERTY CMAKE_CONFIGURE_DEPENDS)
+    foreach(path IN LISTS ARGN)
+        get_filename_component(abs_path "${path}" REALPATH)
+        if(NOT "${abs_path}" IN_LIST configure_depends)
+            list(APPEND configure_depends "${abs_path}")
+        endif()
+    endforeach()
+    set_property(DIRECTORY PROPERTY CMAKE_CONFIGURE_DEPENDS "${configure_depends}")
+endfunction()
diff --git a/cmake/QtPublicSbomHelpers.cmake b/cmake/QtPublicSbomHelpers.cmake
index 12bcbc6e48f..101df1df75a 100644
--- a/cmake/QtPublicSbomHelpers.cmake
+++ b/cmake/QtPublicSbomHelpers.cmake
@@ -432,8 +432,7 @@ function(_qt_internal_sbom_end_project)
 
     # Add configure-time dependency on project attribution files.
     get_property(attribution_files GLOBAL PROPERTY _qt_internal_project_attribution_files)
-    list(REMOVE_DUPLICATES attribution_files)
-    set_property(DIRECTORY APPEND PROPERTY CMAKE_CONFIGURE_DEPENDS "${attribution_files}")
+    _qt_internal_append_cmake_configure_depends(${attribution_files})
 endfunction()
 
 # Automatically begins sbom generation for a qt git repo unless QT_SKIP_SBOM_AUTO_PROJECT is TRUE.
diff --git a/doc/CMakeLists.txt b/doc/CMakeLists.txt
index 176bbf921bb..47289e965c8 100644
--- a/doc/CMakeLists.txt
+++ b/doc/CMakeLists.txt
@@ -19,7 +19,7 @@ foreach(dir global config)
             # dependencies should be set up in that case (coarsness, use install vs build dirs,
             # etc).
             file(GLOB_RECURSE files LIST_DIRECTORIES FALSE "${dir}/*")
-            set_property(DIRECTORY APPEND PROPERTY CMAKE_CONFIGURE_DEPENDS ${files})
+            _qt_internal_append_cmake_configure_depends(${files})
         endif()
     endif()
 endforeach()