The best work around I discovered was to run nebula inside of a wrapped version of ddmf's "metaplugin". The cool thing about this plugin is that you can chain multiple nebula's one after the other, all with correct delay compensation applied. You could then save a preset of that chain and quickly load that in other sessions. For example - I have a nebula master bus chain that I use on every song I do. Now instead of loading all these presets and setting the gain structure, its all done with one click! On top of this I found that nebula was way more stable as well!
I'm going to try Metaplugin tomorrow. If that does the trick it would be sweet, the price is quite palatable. Thanks for the suggestions! Using Nebula in PT is really new for me, I'm used to having a more cooperative host.
Just tried loading a 96kHz program inside a 44.1kHz session and I didn't get any flashing arrow. Then I tried converting that session to 48kHz and got a flashing arrow I then tried reloading the program, saving, closing and reopening the session, and your right! There was still a flashing arrow! I haven't been doing any 48kHz sessions, so I hadn't noticed that behaviour.... Thanks for pointing that out :O