I have a .fex that is an accordian report. When I call through webservice, I am getting javascript errors saying it is missing table1 and javascript for the toggle of the table. It there a way to run an accordian report from a webservice call?

What are you doing with the returned report ?

If you look at the source of an accordian report, you will notice that it has javascript libraries.

Also, once the report is recieved, does the browser have access to these libraries.

No, the infomast server is not the same as the browser server.