diff --git a/src/common/log.cpp b/src/common/log.cpp
index b1d6d8962..2906618ec 100644
--- a/src/common/log.cpp
+++ b/src/common/log.cpp
@@ -501,6 +501,9 @@ void Log::FileOutputLogCallback(void* pUserParam, MessageCategory cat, const cha
 void Log::SetFileOutputParams(bool enabled, const char* filename, bool timestamps /* = true */)
 {
   std::unique_lock lock(s_state.callbacks_mutex);
+
+  s_state.file_output_timestamp = timestamps;
+
   if (s_state.file_output_enabled == enabled)
     return;
 
@@ -523,7 +526,6 @@ void Log::SetFileOutputParams(bool enabled, const char* filename, bool timestamp
   }
 
   s_state.file_output_enabled = enabled;
-  s_state.file_output_timestamp = timestamps;
 }
 
 Log::Level Log::GetLogLevel()
diff --git a/src/core/settings.cpp b/src/core/settings.cpp
index 7f2e53e90..4200dcf14 100644
--- a/src/core/settings.cpp
+++ b/src/core/settings.cpp
@@ -1164,6 +1164,7 @@ void Settings::SetDefaultLogConfig(SettingsInterface& si)
   si.SetBoolValue("Logging", "LogToDebug", false);
   si.SetBoolValue("Logging", "LogToWindow", false);
   si.SetBoolValue("Logging", "LogToFile", false);
+  si.SetBoolValue("Logging", "LogFileTimestamps", false);
 
   for (const char* channel_name : Log::GetChannelNames())
     si.SetBoolValue("Logging", channel_name, true);
@@ -1179,6 +1180,7 @@ void Settings::UpdateLogConfig(const SettingsInterface& si)
   const bool log_to_debug = si.GetBoolValue("Logging", "LogToDebug", false);
   const bool log_to_window = si.GetBoolValue("Logging", "LogToWindow", false);
   const bool log_to_file = si.GetBoolValue("Logging", "LogToFile", false);
+  const bool log_file_timestamps = si.GetBoolValue("Logging", "LogFileTimestamps", false);
 
   const bool any_logs_enabled = (log_to_console || log_to_debug || log_to_window || log_to_file);
   Log::SetLogLevel(any_logs_enabled ? log_level : Log::Level::None);
@@ -1189,7 +1191,7 @@ void Settings::UpdateLogConfig(const SettingsInterface& si)
   if (log_to_file)
   {
     Log::SetFileOutputParams(log_to_file, Path::Combine(EmuFolders::DataRoot, "duckstation.log").c_str(),
-                             log_timestamps);
+                             log_file_timestamps);
   }
   else
   {
diff --git a/src/duckstation-qt/advancedsettingswidget.cpp b/src/duckstation-qt/advancedsettingswidget.cpp
index e88c535ba..20e169257 100644
--- a/src/duckstation-qt/advancedsettingswidget.cpp
+++ b/src/duckstation-qt/advancedsettingswidget.cpp
@@ -180,6 +180,11 @@ AdvancedSettingsWidget::AdvancedSettingsWidget(SettingsWindow* dialog, QWidget*
   SettingWidgetBinder::BindWidgetToBoolSetting(sif, m_ui.logToDebug, "Logging", "LogToDebug", false);
   SettingWidgetBinder::BindWidgetToBoolSetting(sif, m_ui.logToWindow, "Logging", "LogToWindow", false);
   SettingWidgetBinder::BindWidgetToBoolSetting(sif, m_ui.logToFile, "Logging", "LogToFile", false);
+  SettingWidgetBinder::BindWidgetToBoolSetting(sif, m_ui.logTimestamps, "Logging", "LogTimestamps", true);
+  SettingWidgetBinder::BindWidgetToBoolSetting(sif, m_ui.logFileTimestamps, "Logging", "LogFileTimestamps", false);
+  connect(m_ui.logToConsole, &QCheckBox::checkStateChanged, this, &AdvancedSettingsWidget::onAnyLogSinksChanged);
+  connect(m_ui.logToWindow, &QCheckBox::checkStateChanged, this, &AdvancedSettingsWidget::onAnyLogSinksChanged);
+  connect(m_ui.logToFile, &QCheckBox::checkStateChanged, this, &AdvancedSettingsWidget::onAnyLogSinksChanged);
 
   SettingWidgetBinder::BindWidgetToBoolSetting(sif, m_ui.showDebugMenu, "Main", "ShowDebugMenu", false);
 
@@ -205,6 +210,10 @@ AdvancedSettingsWidget::AdvancedSettingsWidget(SettingsWindow* dialog, QWidget*
                              tr("Logs messages to the window."));
   dialog->registerWidgetHelp(m_ui.logToFile, tr("Log To File"), tr("User Preference"),
                              tr("Logs messages to duckstation.log in the user directory."));
+  dialog->registerWidgetHelp(m_ui.logTimestamps, tr("Log Timestamps"), tr("User Preference"),
+                             tr("Includes the elapsed time since the application start in window and console logs."));
+  dialog->registerWidgetHelp(m_ui.logFileTimestamps, tr("Log File Timestamps"), tr("User Preference"),
+                             tr("Includes the elapsed time since the application start in file logs."));
   dialog->registerWidgetHelp(m_ui.showDebugMenu, tr("Show Debug Menu"), tr("Unchecked"),
                              tr("Shows a debug menu bar with additional statistics and quick settings."));
 }
@@ -218,6 +227,16 @@ void AdvancedSettingsWidget::onLogChannelsButtonClicked()
   menu.exec(QCursor::pos());
 }
 
+void AdvancedSettingsWidget::onAnyLogSinksChanged()
+{
+  const bool log_to_console = m_dialog->getEffectiveBoolValue("Logging", "LogToConsole", false);
+  const bool log_to_window = m_dialog->getEffectiveBoolValue("Logging", "LogToWindow", false);
+  const bool log_to_file = m_dialog->getEffectiveBoolValue("Logging", "LogToFile", false);
+
+  m_ui.logTimestamps->setEnabled(log_to_console || log_to_window);
+  m_ui.logFileTimestamps->setEnabled(log_to_file);
+}
+
 void AdvancedSettingsWidget::onShowDebugOptionsStateChanged()
 {
   const bool enabled = QtHost::ShouldShowDebugOptions();
diff --git a/src/duckstation-qt/advancedsettingswidget.h b/src/duckstation-qt/advancedsettingswidget.h
index a1bb393a1..86dd52b1c 100644
--- a/src/duckstation-qt/advancedsettingswidget.h
+++ b/src/duckstation-qt/advancedsettingswidget.h
@@ -22,6 +22,7 @@ Q_SIGNALS:
 
 private Q_SLOTS:
   void onLogChannelsButtonClicked();
+  void onAnyLogSinksChanged();
   void onShowDebugOptionsStateChanged();
 
 private:
diff --git a/src/duckstation-qt/advancedsettingswidget.ui b/src/duckstation-qt/advancedsettingswidget.ui
index 5ba4cf5c7..4116c78cf 100644
--- a/src/duckstation-qt/advancedsettingswidget.ui
+++ b/src/duckstation-qt/advancedsettingswidget.ui
@@ -58,10 +58,10 @@
       </item>
       <item row="1" column="0" colspan="3">
        <layout class="QGridLayout" name="gridLayout_2">
-        <item row="0" column="0">
-         <widget class="QCheckBox" name="logToConsole">
+        <item row="1" column="1">
+         <widget class="QCheckBox" name="logToFile">
           <property name="text">
-           <string>Log To System Console</string>
+           <string>Log To File</string>
           </property>
          </widget>
         </item>
@@ -72,6 +72,13 @@
           </property>
          </widget>
         </item>
+        <item row="0" column="0">
+         <widget class="QCheckBox" name="logToConsole">
+          <property name="text">
+           <string>Log To System Console</string>
+          </property>
+         </widget>
+        </item>
         <item row="1" column="0">
          <widget class="QCheckBox" name="logToDebug">
           <property name="text">
@@ -79,10 +86,17 @@
           </property>
          </widget>
         </item>
-        <item row="1" column="1">
-         <widget class="QCheckBox" name="logToFile">
+        <item row="2" column="0">
+         <widget class="QCheckBox" name="logTimestamps">
           <property name="text">
-           <string>Log To File</string>
+           <string>Log Timestamps</string>
+          </property>
+         </widget>
+        </item>
+        <item row="2" column="1">
+         <widget class="QCheckBox" name="logFileTimestamps">
+          <property name="text">
+           <string>Log File Timestamps</string>
           </property>
          </widget>
         </item>
diff --git a/src/duckstation-qt/mainwindow.cpp b/src/duckstation-qt/mainwindow.cpp
index 130a42a9a..0cc04011c 100644
--- a/src/duckstation-qt/mainwindow.cpp
+++ b/src/duckstation-qt/mainwindow.cpp
@@ -2314,6 +2314,8 @@ void MainWindow::connectSignals()
   SettingWidgetBinder::BindWidgetToBoolSetting(nullptr, m_ui.actionLogToFile, "Logging", "LogToFile", false);
   SettingWidgetBinder::BindWidgetToBoolSetting(nullptr, m_ui.actionLogToWindow, "Logging", "LogToWindow", false);
   SettingWidgetBinder::BindWidgetToBoolSetting(nullptr, m_ui.actionLogTimestamps, "Logging", "LogTimestamps", true);
+  SettingWidgetBinder::BindWidgetToBoolSetting(nullptr, m_ui.actionLogFileTimestamps, "Logging", "LogFileTimestamps",
+                                               false);
 
   SettingWidgetBinder::BindWidgetToBoolSetting(nullptr, m_ui.actionEnableSafeMode, "Main", "DisableAllEnhancements",
                                                false);
diff --git a/src/duckstation-qt/mainwindow.ui b/src/duckstation-qt/mainwindow.ui
index 9c951b8a2..6b5ca5e0c 100644
--- a/src/duckstation-qt/mainwindow.ui
+++ b/src/duckstation-qt/mainwindow.ui
@@ -169,6 +169,7 @@
     <addaction name="actionLogToWindow"/>
     <addaction name="actionLogToFile"/>
     <addaction name="actionLogTimestamps"/>
+    <addaction name="actionLogFileTimestamps"/>
     <addaction name="separator"/>
     <addaction name="actionCPUDebugger"/>
     <addaction name="separator"/>
@@ -955,6 +956,14 @@
     <string>Log Timestamps</string>
    </property>
   </action>
+  <action name="actionLogFileTimestamps">
+   <property name="checkable">
+    <bool>true</bool>
+   </property>
+   <property name="text">
+    <string>Log File Timestamps</string>
+   </property>
+  </action>
   <action name="actionLogToSystemConsole">
    <property name="checkable">
     <bool>true</bool>