Reload Javascript after ajax event
I could be wrong here but am going to assume that the fetching of the embedded view and HTML refresh on the client-side has been done using custom Javascript code.

Once new HTML has been added to the DOM in a custom way, then to attach all Drupal behaviors defined by active modules, from within the success callback of your XHR client (say jQuery.ajax()) you might have to manually call:

// $wrapper here is the jQuery object identifying the wrapper element to
// which your new HTML has been injected to. Eg. $wrapper = $('.my-view-wrapper')
Drupal.attachBehaviors($wrapper, Drupal.settings);


My recommendation would be to try and possibly switch to the Drupal AJAX API (Documentation) as it lets you keep this refresh logic on the server-side (one place). The other, obvious benefit is that Drupal.attachBehaviors() is called for you automatically.