Install new software causes start menu links to disappear

Hi all, i really need an answer to this. It's killing me.

I'm using a Windows Vista Ultimate edition. And recently reformatted my PC.

At first, i installed all my basic drivers and softwares, and sort out the

links (start menu) of all the softwares to each folder that i want.

Later, when i installed my wacom tablet driver, i noticed that 'all' the

start menu links to the softwares that i have installed are gone. But the

softwares are still in the programes folder and the still working fine.

(note: the wacom driver worked fine although this problem occurred)

Although the start menu links to my installed softwares and driver are gone,

the original links to preinstalled vista programs are still there.

So to solve the problem i did a system restore.

But after that, on 2 other installation, the same problem occurred. The 2

other softwares were, the Windows vista codec pack, and TVU player (iptv).

Please help me, cause doing system restore is not a solution at all.

Thank You.