Do not cache file generation when user logged in

you could either try to find out which (inline) JS is being added for logged in users and exclude that from optimization or you could use the API’s “autoptimize_filter_noptimize” filter and return true if is_user_logged_in is true (there’s example code for the use of “autoptimize_filter_noptimize” in autoptimize_helper.php_example).

hope this helps,
frank