diff --git a/src/core/CMakeLists.txt b/src/core/CMakeLists.txt
index 3212880ab..4825d88fe 100644
--- a/src/core/CMakeLists.txt
+++ b/src/core/CMakeLists.txt
@@ -228,4 +228,15 @@ function(add_core_resources target)
     endif()
     install(DIRECTORY "$<TARGET_FILE_DIR:${target}>/resources" DESTINATION "${CMAKE_INSTALL_BINDIR}")
   endif()
+
+  # Linux platforms need a copy of the .desktop and icon file because Wayland stupidity.
+  # See QtHost::EarlyProcessStartup() for where this is used and why. We still need to set it when running
+  # as a Flatpak, but thankfully we don't need the extra copy.
+  if((LINUX OR BSD) AND (NOT DEFINED ENV{container}))
+    message(STATUS "Copying desktop file to resources directory.")
+    set(PACKAGING_SOURCE_DIR "${CMAKE_SOURCE_DIR}/scripts/packaging")
+    foreach(path "org.duckstation.DuckStation.desktop" "org.duckstation.DuckStation.png")
+      add_resources(${target} "${PACKAGING_SOURCE_DIR}/${path}" "${PACKAGING_SOURCE_DIR}")
+    endforeach()
+  endif()
 endfunction()
diff --git a/src/duckstation-qt/qthost.cpp b/src/duckstation-qt/qthost.cpp
index 2c1f7e8b7..704765ae2 100644
--- a/src/duckstation-qt/qthost.cpp
+++ b/src/duckstation-qt/qthost.cpp
@@ -180,6 +180,25 @@ bool QtHost::EarlyProcessStartup()
   // TODO: Re-evaluate this on Qt 6.9.
   if (QtHost::IsRunningOnWayland())
     QGuiApplication::setAttribute(Qt::AA_DontCreateNativeWidgetSiblings, true);
+
+  // We also need to manually set the path to the .desktop file, because Wayland's stupidity doesn't allow
+  // applications to set window icons, because GNOME circlejerkers think their iconless windows are superior.
+  // Even the Qt side of this is weird, thankfully we can give it an absolute path, just without the extension.
+  // To make matters even worse, setting the full path here doesn't work for Flatpaks... or anything outside of
+  // KDE. Setting the application name alone does for flatpak. What a clusterfuck of a platform for basic tasks
+  // that operating systems have done for decades.
+  if (getenv("container"))
+  {
+    // Flatpak.
+    QGuiApplication::setDesktopFileName(QStringLiteral("org.duckstation.DuckStation"));
+  }
+  else if (const char* current_desktop = getenv("XDG_CURRENT_DESKTOP");
+           current_desktop && std::strstr(current_desktop, "KDE"))
+  {
+    // AppImage or local build.
+    QGuiApplication::setDesktopFileName(
+      QString::fromStdString(Path::Combine(EmuFolders::Resources, "org.duckstation.DuckStation")));
+  }
 #endif
 
   // Config-based RAIntegration switch must happen before the main window is displayed.