AppConfig is another pretty powerful config (including ini) file module..

I don't think Template Toolkit is too good for throwaway scripts.

If you have it installed and are fast with it, i think it can be very good to use with __DATA__ (you also get the big bonus over here-docs of easy complicated logic) .. I like doing this for quick & dirty .cgi scripts so everything's in one file.. In this case it could be overkill, but it is pretty clear code:

use strict;
use warnings;
use Template;
my $template = Template->new();
my @names = qw(file1 file2);
my $tpl = do{ local $/ = undef; <DATA> };
for my $name (@names) {
  $template->process($tpl, { name => $name }, "$name.ini");
}
__DATA__
[main]
left_hand_side=[% name %].html
right_hand_side=[% name %].php
file_regex_pattern=\.php$
dir_regex_pattern=(?!^svn$)
[download]

note: for a single template, outputting to stdout (e.g. cgi), you can do $template->process(\*DATA, $data ); but in the loop above the filehandle wouldn't be reset in the loop ..