First off, check your BIOS version on the top right corner of the Main menu page [see page 2-5 of your manual]. The 28-02-2012 version [ver 1002] has improvements to system stability and memory compatibility. The latest [1003] improves onboard LAN functions. If you don't have either of these versions then I suggest flashing your BIOS to 1003.
You need to access System Information on the same page. This will show what the machine sees with regard to your BIOS version, and CPU and RAM properties. [2-9]
Page 2-14 shows how to configure your internal graphics mode. You need to have GFX0-GPP-IGFX-PCI as your setting. Disabling drivers from within Windows doesn't have the same effect as this setting.
Page 2-22 has all the necessary info about updating your BIOS. Don't forget to have a thumb-drive ready. Read carefully.
There really shouldn't be an issue with Core-unlocking. If you have a six-core processor then the BIOS should recognise it and run it automatically. For example - I have a Phenom 2 x4 on an AM3 mobo. While the core-unlocking procedure is part of the pre-POST screen, I don't touch it. If I had an X3 then I might have tried unlocking the fourth core, otherwise it has no uses.
The system panel connector is explained on page 1-25.
Please remove the old specs in your sig