I just spent all yesterday trying to figure out why MFM 3.3 won't work with Toyatagi's compilation mod but works fine with Onealex's. Come to find out WAC full interiors doesn't like MFM and Toyatagi's has it while Onealex's comp doesn't.
I had MFM working fine on Onealex and soon as I put WAC in with it in jsgme then it crashed every time on red bar, removed it and all was fine lol(albeit increased loading time because of all the ships). I had WAC interiors working fine with Onealex without MFM just so you know

Onealex's includes some ships already from MFM that he upgraded and fixed up, I just decided to add the rest of them to the mod making sure no duplicate names in sea, roster folders or Englishnames.cfg file.
So there's an example of something with not even the same name or same files or same location within SH3 screws 'other' stuff up randomly which makes no sense but could be any number of things going wrong with your compilation.
P.S Andrey is probably going back to the drawing board right now saying **** ****, **** **** lol, this is worse then the torpedo crisis.

All good buddy i'm just kidding, let me know when you got a fix up and running.