diff --git a/pcsx2-qt/Settings/GamePatchSettingsWidget.cpp b/pcsx2-qt/Settings/GamePatchSettingsWidget.cpp
index 3e1b7ed68f..ae1650c384 100644
--- a/pcsx2-qt/Settings/GamePatchSettingsWidget.cpp
+++ b/pcsx2-qt/Settings/GamePatchSettingsWidget.cpp
@@ -68,6 +68,8 @@ GamePatchSettingsWidget::GamePatchSettingsWidget(SettingsWindow* dialog, QWidget
 	m_ui.scrollArea->setFrameShape(QFrame::WinPanel);
 	m_ui.scrollArea->setFrameShadow(QFrame::Sunken);
 
+	setUnlabeledPatchesWarningVisibility(false);
+
 	connect(m_ui.reload, &QPushButton::clicked, this, &GamePatchSettingsWidget::onReloadClicked);
 
 	reloadList();
@@ -86,10 +88,12 @@ void GamePatchSettingsWidget::onReloadClicked()
 void GamePatchSettingsWidget::reloadList()
 {
 	// Patches shouldn't have any unlabelled patch groups, because they're new.
-	std::vector<Patch::PatchInfo> patches = Patch::GetPatchInfo(m_dialog->getSerial(), m_dialog->getDiscCRC(), false, nullptr);
+	u32 numberOfUnlabeledPatches = 0;
+	std::vector<Patch::PatchInfo> patches = Patch::GetPatchInfo(m_dialog->getSerial(), m_dialog->getDiscCRC(), false, &numberOfUnlabeledPatches);
 	std::vector<std::string> enabled_list =
 		m_dialog->getSettingsInterface()->GetStringList(Patch::PATCHES_CONFIG_SECTION, Patch::PATCH_ENABLE_CONFIG_KEY);
 
+	setUnlabeledPatchesWarningVisibility(numberOfUnlabeledPatches > 0);
 	delete m_ui.scrollArea->takeWidget();
 
 	QWidget* container = new QWidget(m_ui.scrollArea);
@@ -130,3 +134,7 @@ void GamePatchSettingsWidget::reloadList()
 
 	m_ui.scrollArea->setWidget(container);
 }
+
+void GamePatchSettingsWidget::setUnlabeledPatchesWarningVisibility(bool visible) {
+	m_ui.unlabeledPatchWarning->setVisible(visible);
+}
\ No newline at end of file
diff --git a/pcsx2-qt/Settings/GamePatchSettingsWidget.h b/pcsx2-qt/Settings/GamePatchSettingsWidget.h
index 323942f5b5..158be13977 100644
--- a/pcsx2-qt/Settings/GamePatchSettingsWidget.h
+++ b/pcsx2-qt/Settings/GamePatchSettingsWidget.h
@@ -60,6 +60,7 @@ private Q_SLOTS:
 
 private:
 	void reloadList();
+	void setUnlabeledPatchesWarningVisibility(bool visible);
 
 	Ui::GamePatchSettingsWidget m_ui;
 	SettingsWindow* m_dialog;
diff --git a/pcsx2-qt/Settings/GamePatchSettingsWidget.ui b/pcsx2-qt/Settings/GamePatchSettingsWidget.ui
index ca59c6e793..16e9796634 100644
--- a/pcsx2-qt/Settings/GamePatchSettingsWidget.ui
+++ b/pcsx2-qt/Settings/GamePatchSettingsWidget.ui
@@ -33,6 +33,13 @@
      </property>
     </widget>
    </item>
+   <item>
+    <widget class="QLabel" name="unlabeledPatchWarning">
+     <property name="text">
+      <string>Any patches bundled with PCSX2 for this game will be disabled since you have unlabeled patches loaded.</string>
+     </property>
+    </widget>
+   </item>
    <item>
     <widget class="QScrollArea" name="scrollArea">
      <property name="widgetResizable">