As is so often the case with these things. Mearly asking for help (not even getting any) is sometimes sufficient to help one see the solution!

#!/usr/bin/perl -w
use strict;
use Digest::CRC;

my @s=( 
    { 's'=>"9848C503738276ADCA02BF5DC1A3ABF2", 'crc16'=>"9F4B" },
    { 's'=>"841374844ADDF4A36CEDB127C82086B9", 'crc16'=>"408E" },
    { 's'=>"8AC1070ACD1659BB4F507191E33F7AD4", 'crc16'=>"E1E3" },
    { 's'=>"34623A01DCDA35BED462953B4E2458DA", 'crc16'=>"7B40" },
    { 's'=>"E29107CB32975E859D76A885BF57BE35", 'crc16'=>"2B92" },
    { 's'=>"FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF", 'crc16'=>"0041" },
);

my $ctx = Digest::CRC->new(type=>"crc16");
$ctx = Digest::CRC->new(width=>16, init=>0x0000, xorout=>0x0000, 
                        refout=>0, poly=>0x1021, refin=>0, cont=>0);
 
for my $tv (@s) {
    my $key = $tv->{s};
    my $value = pack "H*", "$key";

    $ctx->add($value);
    my $digest = $ctx->digest;
    my $hexdigest = sprintf("%X", $digest);


    
    print qq{
Input was: $key
crc: $digest as HEX: $hexdigest -- Should be: $tv->{crc16}
};
}
[download]

$hexdigest now has the expected data value!