It appears to be working as designed. I tried the command line aspnet_regiis
for both 1.1 and 2.0 and they both recycled W3SVC. I think the answer is
going to be to run "aspnet_regiis -i" and install 2.0 into all sites. It's
advertised as being compatible for 1.1 and that eliminates the need to set
sites individually.
>> Stay informed about: Dot Net 2.0 IIS Recycle