This is in the instructions but I missed it...
Make sure that if the BizTalk EDI Base Service is disabled make it manual.
If you do not there will be issues.
Another item is we use Covast. Covast has an adapter and if you have set it up you must take it out of the adapters list or the new EDI adapter will fail.
This took me about 5 times of configuring to get it right.
So make sure 1. EDI base service is manual and 2. Remove the Covast adapter from the list of configured adpaters in BizTalk administration.
Other than that the install was seemless.