In my poking around I have discovered something.
When someone has excessive MAFs there is a question that should be asked:
Have you ever installed the Star Trek mod?
This refers to the original one by deanej, not the new ST-II mod by cpt.tripps.2012.
This is important because the ST mod is actually a collection of mods, most of which are specific to scenarios. Because it actually comprises some 13 different mods in the mods folder and they share a bunch of resources the ST mod installs a set of 4 FPK files into the regular BtS Assets folder, not into the Assets folder of each mod. They total some 359MB in size.
These FPK files, being in the BtS Assets folder, are always loaded (or indexed or whatever it does with them) for BtS or any BtS mod, not just Star Trek. Not too surprisingly this uses up some memory.
So if the answer is yes, then moving the Star Trek FPK files out of the BtS Assets folder and down into Mods/Star Trek/Assets (and copied into any of the other ST mods that you want to play) may help with loading and running C2C. It will also probably slightly speed up loading C2C, any other mod other than ST, and even base BtS as well since these FPK files will no longer be used when loading those things.
There is also a slim chance that this could be involved in the "black tile" issue since duplicate art assets may be involved in that and the Star Trek FPK files and the C2C FPK files may have some duplicates. It is probably not very likely, but it is possible.