In the attached scene remove either of the box objects from either of the Frost Objects, add a cap holes modifier two either Box001 or Box003. then try to add to Frost. Crash.

Adding the Cap holes after the object is added to Frost does not crash max but stops Frost from generating a mesh.
max2011_FRST_ChangingTopo_Issue.max (552 KB)

Thanks for your report! This should be fixed in the next Frost release.

I like the workaround you posted