Its Obvious to run script when you insert it, between script tags,Because your DOM already complete loads.
And it will run twice because you put it inside the body So when you body content canges the script ran again!
So you have to set your Script tag on head of an iframe to it will run Only when you insert it or reload,and not again an again !
I am not suggesting you to use eval() because it is dangerous to use for script evaluation,eval() is basically used for another purpose !
Use <script></script> tags to run your script and place it on head if you don't want to ran it twice .
var script = document.createElement('script');
script.innerHTML = $("#EJs").val();
iframe.contentWindow.document.head.appendChild(script);
May be this will help you..
$("#EJs").val()My answer accept mine because it's good yes accept it.