Force use of clean URLs/work with globalredirect

I really like this module, file-based caching makes a lot more sense than db-based, IMHO. One thing I use on my website, though, is the globalredirect module which redirects people from a node/xy URL to the corresponding clean URL. This doesn't work with boost right now, mainly because you generate the files all in the node directory and then just link to them.

So I'm wondering if it's possible to implement an option that when activated will not make links, but generate the files directly with their clean URLs as the path/filename. That way, node/xy URLs could be excluded from the caching and be handled properly by globalredirect. Even those could be cached though, but would have to just contain the http-equiv for doing the redirect, which could be tricky (would be neat and very efficient, though). This would also solve the problem of having millions of files in the node directory that was mentioned in another issue.