diff --git a/Source/Core/Common/IniFile.cpp b/Source/Core/Common/IniFile.cpp
index 9023db682c..4e150cb6aa 100644
--- a/Source/Core/Common/IniFile.cpp
+++ b/Source/Core/Common/IniFile.cpp
@@ -176,6 +176,11 @@ bool IniFile::DeleteSection(std::string_view section_name)
   return false;
 }
 
+bool IniFile::Exists(std::string_view section_name) const
+{
+  return GetSection(section_name) != nullptr;
+}
+
 bool IniFile::Exists(std::string_view section_name, std::string_view key) const
 {
   const Section* section = GetSection(section_name);
diff --git a/Source/Core/Common/IniFile.h b/Source/Core/Common/IniFile.h
index c791e546a8..cdcd48c7ef 100644
--- a/Source/Core/Common/IniFile.h
+++ b/Source/Core/Common/IniFile.h
@@ -119,6 +119,7 @@ public:
 
   bool Save(const std::string& filename);
 
+  bool Exists(std::string_view section_name) const;
   // Returns true if key exists in section
   bool Exists(std::string_view section_name, std::string_view key) const;
 
diff --git a/Source/Core/Core/HotkeyManager.cpp b/Source/Core/Core/HotkeyManager.cpp
index 7eb3fe08a3..8e66a9e89a 100644
--- a/Source/Core/Core/HotkeyManager.cpp
+++ b/Source/Core/Core/HotkeyManager.cpp
@@ -13,6 +13,8 @@
 
 #include "Common/Common.h"
 #include "Common/CommonTypes.h"
+#include "Common/FileUtil.h"
+#include "Common/IniFile.h"
 #include "Common/StringUtil.h"
 
 #include "InputCommon/ControllerEmu/Control/Input.h"
@@ -238,6 +240,43 @@ bool IsPressed(int id, bool held)
   return false;
 }
 
+// This function exists to load the old "Keys" group so pre-existing configs don't break.
+// TODO: Remove this at a future date when we're confident most configs are migrated.
+static void LoadLegacyConfig(ControllerEmu::EmulatedController* controller)
+{
+  IniFile inifile;
+  if (inifile.Load(File::GetUserPath(D_CONFIG_IDX) + "Hotkeys.ini"))
+  {
+    if (!inifile.Exists("Hotkeys") && inifile.Exists("Hotkeys1"))
+    {
+      auto sec = inifile.GetOrCreateSection("Hotkeys1");
+
+      {
+        std::string defdev;
+        sec->Get("Device", &defdev, "");
+        controller->SetDefaultDevice(defdev);
+      }
+
+      for (auto& group : controller->groups)
+      {
+        for (auto& control : group->controls)
+        {
+          std::string key("Keys/" + control->name);
+
+          if (sec->Exists(key))
+          {
+            std::string expression;
+            sec->Get(key, &expression, "");
+            control->control_ref->SetExpression(std::move(expression));
+          }
+        }
+      }
+
+      controller->UpdateReferences(g_controller_interface);
+    }
+  }
+}
+
 void Initialize()
 {
   if (s_config.ControllersNeedToBeCreated())
@@ -246,7 +285,7 @@ void Initialize()
   s_config.RegisterHotplugCallback();
 
   // load the saved controller config
-  s_config.LoadConfig(true);
+  LoadConfig();
 
   s_hotkey_down = {};
 
@@ -256,6 +295,7 @@ void Initialize()
 void LoadConfig()
 {
   s_config.LoadConfig(true);
+  LoadLegacyConfig(s_config.GetController(0));
 }
 
 ControllerEmu::ControlGroup* GetHotkeyGroup(HotkeyGroup group)
@@ -307,7 +347,7 @@ HotkeyManager::HotkeyManager()
   for (std::size_t group = 0; group < m_hotkey_groups.size(); group++)
   {
     m_hotkey_groups[group] =
-        (m_keys[group] = new ControllerEmu::Buttons("Keys", s_groups_info[group].name));
+        (m_keys[group] = new ControllerEmu::Buttons(s_groups_info[group].name));
     groups.emplace_back(m_hotkey_groups[group]);
     for (int key = s_groups_info[group].first; key <= s_groups_info[group].last; key++)
     {
@@ -322,7 +362,7 @@ HotkeyManager::~HotkeyManager()
 
 std::string HotkeyManager::GetName() const
 {
-  return std::string("Hotkeys") + char('1' + 0);
+  return "Hotkeys";
 }
 
 void HotkeyManager::GetInput(HotkeyStatus* const kb)