1. No one can upload our copyrighted code anywhere even here as that would be a violation of the licensing agreement. Our code is protected property and can not be posted publically
2. You can find the necessary code in pp-inc.php under the function topmenu in that file. The various links are coded as $menu and $menu2 so you would have to switch around the order of those elements in the function to acheive a rearrange. Like upload link is a $menu item so you would need to change that to $menu2 link. The changes are too much to that function to post here so your going to have to just make some changes to see what order is best.
3. I can tell you to remove the member list profile and forum links you simply remove the links in that function
Code:
Content visible to verified customers only.
and remove this also
Code:
Content visible to verified customers only.
and remove this also
Code:
Content visible to verified customers only.
4. To remove the messages link simply turn off the messaging option in global options in admin.