I think about that in this way.
If this is your only problem about JS disabled, or if you have just a little JS in your page, maybe it is worth find a way to fix it (probably turn the animations off and making the site a little "uglier"). In that way, you're providing access for everyone (and that was a good concept).
But, personally, I've never cared about that. All websites that I've developed contains a lot of JS (with Ajax calls, for instance), it'd imply in a lot of (unnecessary, in my opinion) work for making them functional without JS.
Searching about it, I've read this question. In 2010, 0.25% of the users in Brazil (country where I live) had JS disabled in their browsers. This number should be even less these days. And honestly, I have better things to do with my time instead of caring about these people.
In short terms, my opinion is: if you just use JS a little (or if it's really necessary make this site work without JS), fix it. In all other cases, forget about that and focus on what really matters.
EDIT:
If you wanna guarantee the content will be displayed, you can hide the element via JS. In this way, the element will only be hidden when CSS and JS are on.
<div class="element-to-hide" style="visibility:visible;"></div>
<style type="text/css">
.hide {
visibility: hidden;
}
</style>
<script>
$('.element-to-hide').addClass('hide');
</script>