diff --git a/Source/Core/DolphinQt2/GameList/GameListModel.cpp b/Source/Core/DolphinQt2/GameList/GameListModel.cpp
index c1e6ce1af1..f332947b28 100644
--- a/Source/Core/DolphinQt2/GameList/GameListModel.cpp
+++ b/Source/Core/DolphinQt2/GameList/GameListModel.cpp
@@ -22,6 +22,8 @@ GameListModel::GameListModel(QObject* parent) : QAbstractTableModel(parent)
           [this](const QString& path) { RemoveGame(path.toStdString()); });
   connect(&Settings::Instance(), &Settings::PathAdded, &m_tracker, &GameTracker::AddDirectory);
   connect(&Settings::Instance(), &Settings::PathRemoved, &m_tracker, &GameTracker::RemoveDirectory);
+  connect(&Settings::Instance(), &Settings::PathReloadRequested, &m_tracker,
+          &GameTracker::ReloadDirectory);
 
   for (const QString& dir : Settings::Instance().GetPaths())
     m_tracker.AddDirectory(dir);
diff --git a/Source/Core/DolphinQt2/GameList/GameTracker.cpp b/Source/Core/DolphinQt2/GameList/GameTracker.cpp
index 4e4dfcb57b..d37869ee12 100644
--- a/Source/Core/DolphinQt2/GameList/GameTracker.cpp
+++ b/Source/Core/DolphinQt2/GameList/GameTracker.cpp
@@ -6,6 +6,7 @@
 #include <QDirIterator>
 #include <QFile>
 
+#include "Core/ConfigManager.h"
 #include "DiscIO/DirectoryBlob.h"
 #include "DolphinQt2/GameList/GameTracker.h"
 #include "DolphinQt2/QtUtils/QueueOnObject.h"
@@ -58,6 +59,12 @@ void GameTracker::RemoveDirectory(const QString& dir)
   m_load_thread.EmplaceItem(Command{CommandType::RemoveDirectory, dir});
 }
 
+void GameTracker::ReloadDirectory(const QString& dir)
+{
+  m_load_thread.EmplaceItem(Command{CommandType::RemoveDirectory, dir});
+  m_load_thread.EmplaceItem(Command{CommandType::AddDirectory, dir});
+}
+
 void GameTracker::UpdateDirectory(const QString& dir)
 {
   m_load_thread.EmplaceItem(Command{CommandType::UpdateDirectory, dir});
@@ -76,13 +83,21 @@ void GameTracker::AddDirectoryInternal(const QString& dir)
   UpdateDirectoryInternal(dir);
 }
 
+static std::unique_ptr<QDirIterator> GetIterator(const QString& dir)
+{
+  return std::make_unique<QDirIterator>(dir, game_filters, QDir::NoFilter,
+                                        SConfig::GetInstance().m_RecursiveISOFolder ?
+                                            QDirIterator::Subdirectories :
+                                            QDirIterator::NoIteratorFlags);
+}
+
 void GameTracker::RemoveDirectoryInternal(const QString& dir)
 {
   removePath(dir);
-  QDirIterator it(dir, game_filters, QDir::NoFilter, QDirIterator::Subdirectories);
-  while (it.hasNext())
+  auto it = GetIterator(dir);
+  while (it->hasNext())
   {
-    QString path = QFileInfo(it.next()).canonicalFilePath();
+    QString path = QFileInfo(it->next()).canonicalFilePath();
     if (m_tracked_files.contains(path))
     {
       m_tracked_files[path].remove(dir);
@@ -98,10 +113,10 @@ void GameTracker::RemoveDirectoryInternal(const QString& dir)
 
 void GameTracker::UpdateDirectoryInternal(const QString& dir)
 {
-  QDirIterator it(dir, game_filters, QDir::NoFilter, QDirIterator::Subdirectories);
-  while (it.hasNext())
+  auto it = GetIterator(dir);
+  while (it->hasNext())
   {
-    QString path = QFileInfo(it.next()).canonicalFilePath();
+    QString path = QFileInfo(it->next()).canonicalFilePath();
 
     if (m_tracked_files.contains(path))
     {
@@ -147,7 +162,7 @@ void GameTracker::UpdateFileInternal(const QString& file)
 
 QSet<QString> GameTracker::FindMissingFiles(const QString& dir)
 {
-  QDirIterator it(dir, game_filters, QDir::NoFilter, QDirIterator::Subdirectories);
+  auto it = GetIterator(dir);
 
   QSet<QString> missing_files;
 
@@ -157,9 +172,9 @@ QSet<QString> GameTracker::FindMissingFiles(const QString& dir)
       missing_files.insert(key);
   }
 
-  while (it.hasNext())
+  while (it->hasNext())
   {
-    QString path = QFileInfo(it.next()).canonicalFilePath();
+    QString path = QFileInfo(it->next()).canonicalFilePath();
     if (m_tracked_files.contains(path))
       missing_files.remove(path);
   }
diff --git a/Source/Core/DolphinQt2/GameList/GameTracker.h b/Source/Core/DolphinQt2/GameList/GameTracker.h
index 73d1e097c4..b6bc8835a1 100644
--- a/Source/Core/DolphinQt2/GameList/GameTracker.h
+++ b/Source/Core/DolphinQt2/GameList/GameTracker.h
@@ -28,6 +28,7 @@ public:
 
   void AddDirectory(const QString& dir);
   void RemoveDirectory(const QString& dir);
+  void ReloadDirectory(const QString& dir);
 
 signals:
   void GameLoaded(std::shared_ptr<const UICommon::GameFile> game);
diff --git a/Source/Core/DolphinQt2/Settings.cpp b/Source/Core/DolphinQt2/Settings.cpp
index 8a523605de..b697b8c431 100644
--- a/Source/Core/DolphinQt2/Settings.cpp
+++ b/Source/Core/DolphinQt2/Settings.cpp
@@ -80,6 +80,11 @@ void Settings::RemovePath(const QString& qpath)
   emit PathRemoved(qpath);
 }
 
+void Settings::ReloadPath(const QString& qpath)
+{
+  emit PathReloadRequested(qpath);
+}
+
 QString Settings::GetDefaultGame() const
 {
   return QString::fromStdString(SConfig::GetInstance().m_strDefaultISO);
diff --git a/Source/Core/DolphinQt2/Settings.h b/Source/Core/DolphinQt2/Settings.h
index dcde3434d6..7e40803e17 100644
--- a/Source/Core/DolphinQt2/Settings.h
+++ b/Source/Core/DolphinQt2/Settings.h
@@ -65,6 +65,7 @@ public:
   void SetPreferredView(bool list);
   QString GetDefaultGame() const;
   void SetDefaultGame(QString path);
+  void ReloadPath(const QString& qpath);
 
   // Emulation
   int GetStateSlot() const;
@@ -123,6 +124,7 @@ signals:
   void PathAdded(const QString&);
   void PathRemoved(const QString&);
   void DefaultGameChanged(const QString&);
+  void PathReloadRequested(const QString&);
   void HideCursorChanged();
   void VolumeChanged(int volume);
   void NANDRefresh();
diff --git a/Source/Core/DolphinQt2/Settings/PathPane.cpp b/Source/Core/DolphinQt2/Settings/PathPane.cpp
index 76ca08edfa..3554876708 100644
--- a/Source/Core/DolphinQt2/Settings/PathPane.cpp
+++ b/Source/Core/DolphinQt2/Settings/PathPane.cpp
@@ -2,6 +2,7 @@
 // Licensed under GPLv2+
 // Refer to the license.txt file included.
 
+#include <QCheckBox>
 #include <QFileDialog>
 #include <QGroupBox>
 #include <QLabel>
@@ -81,9 +82,20 @@ QGroupBox* PathPane::MakeGameFolderBox()
   hlayout->addStretch();
   QPushButton* add = new QPushButton(tr("Add"));
   QPushButton* remove = new QPushButton(tr("Remove"));
+
+  auto* checkbox = new QCheckBox(tr("Search Subfolders"));
+  checkbox->setChecked(SConfig::GetInstance().m_RecursiveISOFolder);
+
   hlayout->addWidget(add);
   hlayout->addWidget(remove);
   vlayout->addLayout(hlayout);
+  vlayout->addWidget(checkbox);
+
+  connect(checkbox, &QCheckBox::toggled, this, [this](bool checked) {
+    SConfig::GetInstance().m_RecursiveISOFolder = checked;
+    for (const auto& path : Settings::Instance().GetPaths())
+      Settings::Instance().ReloadPath(path);
+  });
 
   connect(add, &QPushButton::clicked, this, &PathPane::Browse);
   connect(remove, &QPushButton::clicked, this, &PathPane::RemovePath);