Cannot reproduce.

Based on the description you provided I get the results which are expected from the documentation of ftp_nlist().

Please provide a simple and COMPLETE script which reproduces this error.  Obviously nooone expects you to give out a password to your own server, but you could try to reproduce this on a public ftp server.

look at url = http://webgroup.isikun.edu.tr/arge/ftp/ftp_connect.php
and the basic code to show you the error : 
(file is /tosun.txt) 
//here code starts
$ftp_server2 = "webgroup.isikun.edu.tr";
$ftp_user_name = "ates";
$ftp_user_pass = "*****";
$conn = ftp_connect($ftp_server2,5000);
ftp_login($conn, $ftp_user_name, $ftp_user_pass);
$nlist = (ftp_nlist($conn, "/tosun.txt"));
$rawlist = ftp_rawlist($conn, "/tosun.txt");
echo "nlist=>";
print_r($nlist); 
echo "<br>rawlist=>";
print_r($rawlist); 
ftp_close($conn);

Please try using this CVS snapshot:

  http://snaps.php.net/php4-STABLE-latest.tar.gz
 
For Windows:
 
  http://snaps.php.net/win32/php4-win32-STABLE-latest.zip

same problem continues

look at url = http://webgroup.isikun.edu.tr/arge/ftp/ftp_connect.php

See bug #25347

there is nothing about permissions, rawlist returns "tosun.txt" but nlist return "tosun.txt/tosun.txt "
if you nlist to files name it returns wrong think..

Agreed, this isn't a duplicate of that other bug.

IIS returns \foo.txt properly, but somewhere along the line, PHP turns that into /foo.txt/foo.txt.

I'll take assignment.

Correction:
  When I "reproduced" this bug, I was talking to IIS's FTP service directly using the "LIST" command (equivalent of ftp_rawlist) which does return correct data.  However, using the "NLST" command (equivalent of ftp_nlist) the data returned by IIS is "/http/fopen.php\fopen.php" which is precisely what PHP turns around and provides back.  This makes it Not-A-PHP-Bug, but rather a MS problem.

  That said I don't want to leave you in the lurch, so here's a workaround:

function IISisBROKEN_ftp_nlist($res, $dir) {
  if (ftp_size($res, $dir) >= 0) {
    return $dir;
  }

  return ftp_nlist($res, $dir);
}