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Love to - if you tell me how you supposed it to work and what it really did.

---------- Post updated at 20:44 ---------- Previous update was at 20:43 ----------

... optimally backed by sample...

That would delete any lines, regardless of how long, that contains the string insset in its content, and it would do it in the input file. Since <?php is part of that line it will disappear.
The...

You may want to share your sed script to identify where the <?php lead in was removed.

A sed solution for your problem:sed '1 {/<?php/b;s/^/<?php/}' file >TMP && mv TMP file

Please, try:
perl -i -npe '$_="<?php\n$_" if $. == 1 and not /^<\?php/; $.=0 if eof' *.php

It will convert a php file content from this:

echo readfile("webdictionary.txt");
?>
to this:...