Если на VBS, то можно как-то так:
Код:

Option Explicit
dim FolderPatch, objFSO, objFolder
dim oneFolder
dim onefile
dim objfile, fileList
FolderPatch="C:\TMP"
set objFSO=CreateObject("Scripting.FileSystemObject")
set objFolder=objFSO.GetFolder(FolderPatch)
Sub GetAllFolders(objFolder)
for each oneFolder in objFolder.SubFolders
set fileList=onefolder.Files
for each onefile in fileList
objFile=onefile.delete
next
GetAllFolders oneFolder 'используем рекурсию
next
end sub
set fileList=objFolder.Files
for each onefile in fileList
objFile=onefile.delete
next
GetAllFolders(objFolder)