jQuery is a DOM wrapper. MooTools is a JavaScript "extension." (Note the quotes and please don't crucify me)
What that basically means is that jQuery makes working with the DOM tolerable and MooTools makes working with JavaScript tolerable. I, personally, have issues with the DOM but no issues with JavaScript, so I opt for jQuery.
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jQuery is a DOM wrapper. MooTools is a JavaScript "extension." (Note the quotes and please don't crucify me)
What that basically means is that jQuery makes working with the DOM tolerable and MooTools makes working with JavaScript tolerable. I, personally, have issues with the DOM but no issues with JavaScript, so I opt for jQuery.