Hello,
 I am sorry to say that what I see here is a complete misunderstanding
of Joomla architecture.
And this has nothing to do with Mootools.
1- Either you stick to moo 1.12 and most of the plugs/comps/modules
you cite here should work because they are developed by serious
developers and you don't know how to use them.
2- Or you try your luck with Moo 1.2
and find here various scripts that will help you include correctly Moo
1.2 in joomla :
http://www.google.com/#hl=en&source=hp&q=include+mootools+1.2+in+joomla&aq=f&aqi=&aql=&oq=&gs_rfai=&fp=ae8f9588018abe0f
and keep in mind that using Moo 1.2, you will have to rewrite a lot of
JS scripts
3- just to give you a hint, the mootools behavior in Joomla is run
by :
libraries/joomla/html/html/behavior.php and various scripts in media/
system
4- re : Artofjoomla tut, I guess you are referring to :
Layout Overrides: Popup Login Box

http://www.theartofjoomla.com/home/6-layouts/16-layout-overrides-popup-login-box.html
which is explicitly referring to a module tut/override, not a template
tut

5- You can use this in your template (I would not)  :
******************** index.php *************
<?php JHTML::_( 'behavior.modal' ); ?>
<?php $isIE6 = strpos($_SERVER['HTTP_USER_AGENT'], 'MSIE 6');
    /* --- This removes any default Scripts from the Header Buffer ---
*/
    $header = $this->getHeadData();                   // Get the
current HEAD buffer
    $header['scripts'] = array();                     // Clear all
current 'scripts' entries
    $this->setHeadData($header);                      // Update the
HEAD buffer
    /* --- We add the MooTools Framework manually, see below --- */ ?>

<script type="text/javascript" src="<?php echo $path; ?>/scripts/
mootools.js"></script>
<script type="text/javascript" src="<?php echo $path; ?>/scripts/
modals.js"></script>
********************  end index.php *************

Except that, by default, this
<?php JHTML::_( 'behavior.modal' ); ?>
is calling modal.js --->a specificity of Joomla architecture I was
talking about earlier

that you call again with this :
<script type="text/javascript" src="<?php echo $path; ?>/scripts/
modals.js"></script>

Besides,  which Mootools script are you calling with this ?
<script type="text/javascript" src="<?php echo $path; ?>/scripts/
mootools.js"></script>
You should be calling mootools1.2.4.core.js AND
mootools1.2.4.4.more.js or both libraries concatenated
PS: re : mootools1.2.4.4.more.js should be downloaded entirely because
it is quite difficult to know which features will be used

My advice :
check thoroughly joomla docs where you will find a lot of tuts on this
subject
http://docs.joomla.org/Main_Page

Or, if you want to use Moo.12 great new features without having to
rewrite your JS scripts
Wait for J!1.6 launch.

Now, as it is a Mootools forum, lets get back to this wonderful
framework.


On Mar 20, 4:57 am, Sanford Whiteman <[email protected]>
wrote:
> You  can't  use  window.addEvent until _after_ you've loaded MooTools;
> right now, that is the primary problem on your page at /Template/.
>
> It  seems  like you are still making changes without changing the URL,
> so that makes it hard to troubleshoot further.
>
> -- S.

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