Go to
http://www.angelfire.com/falcon/speedload/Enabler.htm
Download the program. Run it (with admin if 7 or vista)
See the bottom right, beside the clock have those different program icon.
Click the Windows Enabler icon then you can see the icon have a "On" word.
Run your pokesav (Not compact)
Open your sav file
See the disabled Events button at the bottom left?
Click it it will enable (Thanks to windows enabler)
See the 1st badge 2nd badge those? Disabled too right?
Click it and it will enable then untick all those badge you dun 1.
Press ok and save the sav.
Note: It is the no. of badges that affect not the no. 3 badge. You can disable the 1st badge to make the total no. of badge be less than 3. After all the 1st badge is like useless...zzz