I am confused by the fcom requirements it says that you need MMM 3.55 but will it work with the newest version the one that uses the bsa file?

Please check the http://www.gamesas.com/index.php?/topic/1094510-relz-fcom-convergence-and-ufcom-relz/ for all installation questions in regards to FCOM.

Short: You shouldn't be using 3.55, you should be using the newest (e.g. with BSA format now, 3.7+).

thanks.