Any chance of making a http://www.fallout3nexus.com/downloads/file.php?id=10193 version of this??
I don't have or play FO3 so I would not be able to test it. Having said that, I just downloaded BOSS-F and had a look at the master list format. It would nearly work as it is - you only need to change the various location definitions to make it work.
The key issue is that BOSS-F has some additional leading symbol codes (: and ") that BMLM does not process. Also, does BOSS-F create a BOSS log text file and does this have the same Unknown Mods format?
In the end, it might be worth trying this version and see how it behaves with BOSS-F (I am assuming that there are equivalent URLs for the ones defined in the BMLM Configuration Table). If you find that it works, I could probably make a change to BMLM that would allow for the definition of BOSS Symbol Codes. This means that there would only need to be one version.
Let me know how you get on if you decide to do anything.