src/index.php

@@ -97,8 +97,8 @@ if ($params_favicon_source) {
             }
         }
     }
-    $faviconOutputDir = JPATH_ROOT . '/images/favicons';
+    $faviconOutputDir = JPATH_ROOT . '/media/templates/site/' . $this->template . '/images/favicons';
-    $faviconUrlBase   = Uri::root(true) . '/images/favicons';
+    $faviconUrlBase   = Uri::root(true) . '/media/templates/site/' . $this->template . '/images/favicons';
 
     if (MokoFaviconHelper::generate($faviconSourceAbs, $faviconOutputDir)) {
         $faviconHeadTags = MokoFaviconHelper::getHeadTags($faviconUrlBase);

src/script.php

@@ -100,14 +100,40 @@ class Tpl_MokoonyxInstallerScript implements InstallerScriptInterface
     /**
      * Delete the favicon stamp file so favicons and site.webmanifest
      * are regenerated on the next page load after install/update.
+     * Also removes the old /images/favicons/ location.
      */
     private function clearFaviconStamp(): void
     {
-        $stampFile = JPATH_ROOT . '/images/favicons/.favicon_generated';
+        // Clear new location stamp
+        $stampFile = JPATH_ROOT . '/media/templates/site/' . self::NEW_NAME . '/images/favicons/.favicon_generated';
         if (is_file($stampFile)) {
             @unlink($stampFile);
             $this->logMessage('Cleared favicon stamp — will regenerate on next page load.');
         }
+
+        // Remove old /images/favicons/ directory from previous versions
+        $oldDir = JPATH_ROOT . '/images/favicons';
+        if (is_dir($oldDir)) {
+            $files = glob($oldDir . '/*');
+            if ($files) {
+                foreach ($files as $file) {
+                    @unlink($file);
+                }
+            }
+            @unlink($oldDir . '/.favicon_generated');
+            @rmdir($oldDir);
+            $this->logMessage('Removed old favicon directory: images/favicons/');
+        }
+
+        // Remove any favicon files left in the site root
+        $rootFavicons = ['favicon.ico', 'favicon.png', 'apple-touch-icon.png', 'site.webmanifest'];
+        foreach ($rootFavicons as $file) {
+            $path = JPATH_ROOT . '/' . $file;
+            if (is_file($path)) {
+                @unlink($path);
+                $this->logMessage('Removed root favicon: ' . $file);
+            }
+        }
     }
 
     /**