When you do this, are you able to search across all files contained in those aliases? I am not. I just want to make sure I'm not missing something obvious.
No, I cannot. Search in document and search in open files both work as expected. Search in project does not. It returns an empty result and doesn't even find hits in a currently open document.
Let me add, though, that I am having a LOT of trouble with Lion searching in general. Finder searches seem to miss a lot of stuff. So does Spotlight. I'm not convinced this isn't a Lion issue, but I'm not clever enough to track it down. :-\
--Lewy