Adjust configuration priority

Updated the order of priority for configuration sources to improve flexibility and user control:
  1. Command line arguments (highest priority)
  2. User configuration settings (medium priority)
  3. System-wide defaults (lowest priority)
This change ensures that user-specified values take precedence, allowing for a more intuitive configuration experience.

ee/loader/src/main.c

@@ -902,14 +902,6 @@ int main(int argc, char *argv[])
     memset(&sys, 0, sizeof(struct SSystemSettings));
     memset(&drv, 0, sizeof(struct SDriver));
 
-    /*
-     * Load system settings
-     */
-    if (load_driver("system", NULL) < 0) {
-        printf("ERROR: failed to load system settings\n");
-        return -1;
-    }
-
     /*
      * Debugging / testing
      * Becouse PSX2 does not support command line arguments, create a file
@@ -919,7 +911,7 @@ int main(int argc, char *argv[])
     //sys.sCFGFile = "pcsx2";
 
     /*
-     * Parse user commands
+     * Parse command line parameters
      */
     const char *sDVDFile = NULL;
     const char *sATAMode = "no";
@@ -981,7 +973,7 @@ int main(int argc, char *argv[])
     }
 
     /*
-     * Load user/game settings
+     * Load user/game settings. It will not overwrite values set by command line arguments
      */
     if (sys.sCFGFile != NULL) {
         if (load_driver(sys.sCFGFile, NULL) < 0) {
@@ -990,6 +982,15 @@ int main(int argc, char *argv[])
         }
     }
 
+    /*
+     * Load system settings. It will not overwrite values set by command line arguments and user configurable config file
+     */
+    if (load_driver("system", NULL) < 0) {
+        printf("ERROR: failed to load system settings\n");
+        return -1;
+    }
+
+
     // Make sure we don't pass loader arguments to the ELF
     if (iELFArgcStart == -1)
         iELFArgcStart = argc;