Digital preservationistas rejoice?
I managed to get FITS integration working in Islandora via a plugin. The plugin will automatically create a FITS xml datastream for an object upon ingest in the Islandora interface for a given solution pack. Right now I have it working with the Basic Image Solution Pack, Large Image Solution Pack, and PDF Solution Pack. You just have to make sure fits.sh is in your apache user's path (thanks @adr).