Here is an example of the code I am using for the multiple galleries.
<div id="juicebox-container2">
<!--START JUICEBOX EMBED-->
<script src="jbcore/juicebox.js"></script>
<script>
new juicebox({
containerId : "juicebox-container2",
galleryWidth: "600px",
galleryHeight: "500px",
backgroundColor: "#222222",
baseURL: "gadesign"
});
</script>
</div>
<!--END JUICEBOX EMBED-->
And, also:
<div id="juicebox-container1">
<!--START JUICEBOX EMBED-->
<script src="jbcore/juicebox.js"></script>
<script>
new juicebox({
containerId : "juicebox-container1",
galleryWidth: "600px",
galleryHeight: "500px",
backgroundColor: "#222222",
baseUrl: "clientproject"
});
</script>