может, как-то так? тиснул навскидку, работоспособность не проверял.
<tr>
<td><?php echo $entry_upc; ?></td>
<td><textarea name="upc" id="upc"><?php echo $upc; ?></textarea></td>
</tr>
<script type="text/javascript">
CKEDITOR.replace('#upc', {
filebrowserBrowseUrl: 'index.php?route=common/filemanager&token=<?php echo $token; ?>',
filebrowserImageBrowseUrl: 'index.php?route=common/filemanager&token=<?php echo $token; ?>',
filebrowserFlashBrowseUrl: 'index.php?route=common/filemanager&token=<?php echo $token; ?>',
filebrowserUploadUrl: 'index.php?route=common/filemanager&token=<?php echo $token; ?>',
filebrowserImageUploadUrl: 'index.php?route=common/filemanager&token=<?php echo $token; ?>',
filebrowserFlashUploadUrl: 'index.php?route=common/filemanager&token=<?php echo $token; ?>'
});
</script>