Example commands are shown for Windows but can also be used on OS X or linux. The 'fgbl' or 'fg3' executables can be used instead of 'fgrt'.
In this example, we'll transform the 'Animate' model set:
> fgbl mesh convert HeadHires.tri HeadHires2.obj
> fgbl mesh convert ~sdk/data/csam/Animate/InternalBaseFace.tri InternalBaseFace2.obj
Move both HeadHires2.obj and InternalBaseFace2.obj in tandem to whatever coordinate system you want and save.
Extract the affine transform:
> fgbl mesh xform create meshes xf.txt InternalBaseFace.tri InternalBaseFace2.obj
Apply the transform to all the meshes you want to bring across:
> fgbl mesh xform apply xf.txt HeadHires.tri HeadHires2.tri
> fgbl mesh xform apply xf.txt HeadHires_neck_seam.tri HeadHires2_neck_seam.tri
> ...
Now re-create the EGMs:
> fg3t ssm InternalBaseFace2.obj -fv HeadHires2_neck_seam.tri HeadHires2.tri ...
Now copy over and rename the respective PNG, EGT, FIM and TXT files (where applicable).