Insert this script inside of the root directory containing all of the files and folders that contain illegal characters.

Run this command:  find -d . -print0 | xargs -0 /Users/$HOME/Desktop/rename_for_windows (or whatever you named your file)

The script:

#!/usr/bin/perl -w

# This script renames all the files supplied as command-line args
# where necessary so that the filename is acceptable to MS Windows
# Cameron Hayne (macdev@hayne.net), June 2004

use strict;

chomp(@ARGV = <STDIN>) unless @ARGV;

# The Microsoft document at
# http://support.microsoft.com/default…b;EN-US;100108
# says that the following characters are not allowed in filenames
# in each of the specified filesystems:
# FAT:   .  “  /  \  [  ]  |  :  ;  ,  =
# NTFS:  ?  “  /  \  <  >  |  :  *

# We don’t do anything with the dot (.) since it clearly is allowable
# in spite of what that document says.
# And we don’t do anything with the slash (/) since that character
# will not occur in OS X filenames and modifying it would cause
# troubles when a file path (with directories) is specified.
# The changing of the filenames is done via the ‘tr’ statements below.
# Each occurence of a character in the first curly brackets
# is replaced by the character in the second curly brackets.

foreach my $filename (@ARGV)
{
my $orig_filename = $filename;

$filename =~ tr{\\}{-};
$filename =~ tr{*?}{X};
$filename =~ tr{”><[]|:;,’=}{_};

unless ($filename eq $orig_filename)
{
print “About to rename $orig_filename to $filename\n”;
if (-e $filename)
{
print “Oops, there already exists a file named $filename\n”;
print “Skipping the rename - you will have to do it manually\n”;
}
else
{
rename($orig_filename, $filename);
}
}
}