Hopefully this will help you on your trouble shooting, but I get the correct result (e.g. The first set (1 & 6)of double quotes signify a text field that allows embedded commas and the second (2 & 5)and third sets (3 & 4) of double quotes signify an embedded double quote inside a double quoted string)

This is Perl 5.6.1 and Text::CSV_XS V 0.23

#!/usr/bin/perl -w
use Text::CSV_XS;

my $csv = Text::CSV_XS->new;
my $column = '';
my $sample_input_string = '12345,Jim,,"""Smith, Jr.""",1234 W. Baker C
+t., ,Ontario,CA,12345,123456789, ,,27-Apr-02,1234567 ';
if ($csv->parse($sample_input_string)) {
    my @field = $csv->fields;
    my $count = 0;
    for $column (@field) {
        print ++$count, " => ", $column, "\n";
    }
    print "\n";
} else {
    my $err = $csv->error_input;
    print "parse() failed on argument: ", $err, "\n";
}
[download]

Produces

1 => 12345
2 => Jim
3 =>
4 => "Smith, Jr."
5 => 1234 W. Baker Ct.
6 =>
7 => Ontario
8 => CA
9 => 12345
10 => 123456789
11 =>
12 =>
13 => 27-Apr-02
14 => 1234567
[download]