On the searching question, try the "More Search Options" at the "Ask" screen for the Discusion Forum. Then specify LabWindows/CVI in the drop down box.
Another option is to exclude "LabView" using the Exclude box.
On the shortcut question, I think you could put in multiple groups in your distribution kit, one for each shortcut location (Start Menu & Desktop), with different locations in the "Create Shortcuts" box. This may result in a larger distribution kit, but the desired result.
Not too elegant, but otherwise I think you may need to edit the MSI file with something like Orca.