This is not the same line you had in your orriginal post...

GetOptions ("user=s" => \$user, "server=s" => \@servers, "command=s" =
+> \@commands, "file=s" =>\$file, "dest=s"=> \$dest, "config=s" => \$c
+onfig, "help=s" => \$help);
[download]

Putting the "=s" on the "config" option says that using --config is only allowed if you provide it with a value (ie: --config=file.txt)

Since you are calling your script without providing any value to the --config option, the call to GetOptions is failing and not updating any of your variables.

Try running this script...

#!/usr/local/bin/perl  -wl

use Getopt::Long;

my $config = "default";

my $result = GetOptions("config=s" => \$config);

print "result = $result";
print "config = $config";
__END__
    
> monk.pl
result = 1
config = default
> monk.pl --config
Option config requires an argument
result = 
config = default
> monk.pl --config=foo
result = 1
config = foo
[download]