Been using this script for many years to do that. Works great. The critical part is where you do a /\cM/ match and then just chop the end of the line twice. 
#!/usr//bin/perl -w
use strict;
use Getopt::Long;
use IO::File;
use constant USAGEMSG   => <<USAGE;

Usage:  clean-ctrl-m.pl [file]

Options:
        --file                          File to clean (required)
        --help                          This Help

USAGE

my (
        @dir,
        $fh,
        $tmp_fh,
        $file,
        $help,
        $vers
);
$vers = "1.0";

die USAGEMSG unless GetOptions(
        'file=s'        =>      \$file,
        'help'          =>      \$help
);
if ($help) { print "\nVersion: $vers\n"; die USAGEMSG; }
if (not $file) { die USAGEMSG; }

$fh = new IO::File("$file") or die "File not found: $!\n";
$tmp_fh = IO::File->new_tmpfile;

until ($fh->eof()) {
        my $line = $fh->getline();
        if ($line =~ /\cM/) {
                chop($line);
                chop($line);
        }
        print $tmp_fh "$line\n";
}
$fh->close;
$fh = new IO::File(">$file") or die "File not found: $!\n";
seek($tmp_fh,0,0);
until ($tmp_fh->eof()) {
        my $line = $tmp_fh->getline();
        print $fh $line;
}
$fh->close;
$tmp_fh->close;
exit;

[download]

In reply to Re: Remove ^M using script by riffer
in thread Remove ^M using script by Anonymous Monk

Title:
Use:  <p> text here (a paragraph) </p>
and:  <code> code here </code>
to format your post, it's "PerlMonks-approved HTML":


  • Posts are HTML formatted. Put <p> </p> tags around your paragraphs. Put <code> </code> tags around your code and data!
  • Titles consisting of a single word are discouraged, and in most cases are disallowed outright.
  • Read Where should I post X? if you're not absolutely sure you're posting in the right place.
  • Please read these before you post! —
  • Posts may use any of the Perl Monks Approved HTML tags:
    a, abbr, b, big, blockquote, br, caption, center, col, colgroup, dd, del, details, div, dl, dt, em, font, h1, h2, h3, h4, h5, h6, hr, i, ins, li, ol, p, pre, readmore, small, span, spoiler, strike, strong, sub, summary, sup, table, tbody, td, tfoot, th, thead, tr, tt, u, ul, wbr
  • You may need to use entities for some characters, as follows. (Exception: Within code tags, you can put the characters literally.)
            For:     Use:
    & &amp;
    < &lt;
    > &gt;
    [ &#91;
    ] &#93;
  • Link using PerlMonks shortcuts! What shortcuts can I use for linking?
  • See Writeup Formatting Tips and other pages linked from there for more info.