Looks like you can unmanage an IIS application via SWIS. The IIS pool/site looks to only support start, stop, restart functionality.
Found in the Orion.APM.IIS SWIS entity.
This is a script that I made to unmanage and node. It could be adapted to unmanage the IIS App.
Thanks for the response Chad. Here is more details for my problem, I have 10 servers that have 80 application pools on the IIS server, customer on wants to monitor 10 of these app pools. Is there a way I can programmatically disable the unwanted app pools on these 10 servers so I won't have to spend a day doing it manually?
I'm investigating a way to do it in the DB but don't want to miss any supporting tables if I go this route, if its even possible.