[Touch Pro, Fuze ROM Development] arvin2212:
I decided to forgo that issue for the moment and continue to rebuild my initflashfiles.txt

and here's the Result:

;-------------------------------------------------------------------------
Directory("\Windows\Start Menu\Programs"):-Directory("Tools")
Directory("\Windows\Start Menu\Programs\Tools\"):-File("ActiveSync.lnk","\Windows\ActiveSync.lnk")
Directory("\Windows\Start Menu\Programs\Tools\"):-File("Bluetooth Explorer.lnk","\Windows\Bluetooth Explorer.lnk")
Directory("\Windows\Start Menu\Programs\Tools\"):-File("Comm Manager.lnk","\Windows\Comm Manager.lnk")
Directory("\Windows\Start Menu\Programs\Tools\"):-File("Getting Started.lnk","\Windows\Getting Started.lnk")
Directory("\Windows\Start Menu\Programs\Tools\"):-File("JBlend.lnk","\Windows\JBlend.lnk")
Directory("\Windows\Start Menu\Programs\Tools\"):-File("JETCET PRINT 5.lnk","\Windows\JETCET PRINT 5.lnk")
Directory("\Windows\Start Menu\Programs\Tools\"):-File("Search.lnk","\Windows\Search.lnk")
Directory("\Windows\Start Menu\Programs\Tools\"):-File("SIM Manager.lnk","\Windows\SIM Manager.lnk")
Directory("\Windows\Start Menu\Programs\Tools\"):-File("STK Service.lnk","\Windows\STK Service.lnk")
Directory("\Windows\Start Menu\Programs\Tools\"):-File("Voice Recorder.lnk","\Windows\Voice Recorder.lnk")
Directory("\Windows\Start Menu\Programs\Tools\"):-File("Zip.lnk","\Windows\Zip.lnk")
;--------------------------------------------------------------------------
Directory("\Windows\Start Menu\Programs"):-Directory("Navigation")
Directory("\Windows\Start Menu\Programs\Navigation\"):-File("Google Maps.lnk","\Windows\Google Maps.lnk")
Directory("\Windows\Start Menu\Programs\Navigation\"):-File("QuickGPS.lnk","\Windows\QuickGPS.lnk")
;--------------------------------------------------------------------------
Directory("\Windows\Start Menu\Programs"):-Directory("Internet")
Directory("\Windows\Start Menu\Programs\Internet\"):-File("Internet Sharing.lnk","\Windows\Internet Sharing.lnk")
Directory("\Windows\Start Menu\Programs\Internet\"):-File("Messenger.lnk","\Windows\Messenger.lnk")
Directory("\Windows\Start Menu\Programs\Internet\"):-File("Opera Browser.lnk","\Windows\Opera Browser.lnk")
Directory("\Windows\Start Menu\Programs\Internet\"):-File("Remote Desktop Mobile.lnk","\Windows\Remote Desktop Mobile.lnk")
Directory("\Windows\Start Menu\Programs\Internet\"):-File("RSS Hub.lnk","\Windows\RSS Hub.lnk")
Directory("\Windows\Start Menu\Programs\Internet\"):-File("Windows Live.lnk","\Windows\Windows Live.lnk")
;--------------------------------------------------------------------------
Directory("\Windows\Start Menu\Programs"):-Directory("Apps")
Directory("\Windows\Start Menu\Programs\Apps\"):-File("Adobe Reader LE.lnk","\Windows\Adobe Reader LE.lnk")
Directory("\Windows\Start Menu\Programs\Apps\"):-File("Calculator.lnk","\Windows\Calculator.lnk")
Directory("\Windows\Start Menu\Programs\Apps\"):-File("Notes.lnk","\Windows\Notes.lnk")
Directory("\Windows\Start Menu\Programs\Apps\"):-File("Tasks.lnk","\Windows\Tasks.lnk")
Directory("\Windows\Start Menu\Programs\Apps\"):-File("Voice Commander.lnk","\Windows\Voice Commander.lnk")
Directory("\Windows\Start Menu\Programs\Apps\"):-File("Phone.lnk","\Windows\Phone.lnk")
Directory("\Windows\Start Menu\Programs\Apps\"):-File("Contacts.lnk","\Windows\Contacts.lnk")
Directory("\Windows\Start Menu\Programs\Apps\"):-File("Calendar.lnk","\Windows\Calendar.lnk")
;--------------------------------------------------------------------------
Directory("\Windows\Start Menu\Programs"):-Directory("Multimedia")
Directory("\Windows\Start Menu\Programs\Multimedia\"):-File("Album.lnk","\Windows\Album.lnk")
Directory("\Windows\Start Menu\Programs\Multimedia\"):-File("Audio Booster.lnk","\Windows\Audio Booster.lnk")
Directory("\Windows\Start Menu\Programs\Multimedia\"):-File("Camera.lnk","\Windows\Camera.lnk")
Directory("\Windows\Start Menu\Programs\Multimedia\"):-File("FM Radio.lnk","\Windows\FM Radio.lnk")
Directory("\Windows\Start Menu\Programs\Multimedia\"):-File("MP3 Trimmer.lnk","\Windows\MP3 Trimmer.lnk")
Directory("\Windows\Start Menu\Programs\Multimedia\"):-File("Pictures & Videos.lnk","\Windows\Pictures & Videos.lnk")
Directory("\Windows\Start Menu\Programs\Multimedia\"):-File("Streaming Media.lnk","\Windows\Streaming Media.lnk")
Directory("\Windows\Start Menu\Programs\Multimedia\"):-File("Windows Media.lnk","\Windows\Windows Media.lnk")
Directory("\Windows\Start Menu\Programs\Multimedia\"):-File("YouTube.lnk","\Windows\YouTube.lnk")

However, When i flashed the phone, The icons are at the program menu (duplicate) but that is a known issue and can be solved. However, some icons are not in their folders as they're assigned to. I'll provide a list of shortcuts that appears in the respected Folders

Apps Folder:

Adobe Reader LE

Calender

Tasks

Voice Commander

Internet Folder:

Rss Hub

Multimedia Folder:

Album

Camera

FM Radio

MP3 Trimmer

Streaming Media

YouTube

Navigation Folder:

QuickGPS

Tools Folder:

Bluetooth Explorer

JBlend

Search

Zip

Why aren't the remaining shortcuts appearing in the assigned folders? Is it possible that the shortcut names are invalid? I copied them exactly as i see it from File Explorer @ Windows-->Start Menu-->Programs.