I've just uploaded version 1.1.0b, which includes automatic renumbering of words, as appropriate. There still seems to be one bug, though - probably with the file header, so I won't go out of beta yet.
I'm not currently working on UHS stuff right now, because of the AGI2SCI project, but if you like, I can email you the programs I've created so far. They're undocumented, and so might be difficult to use, but you're welcome to them.
There are a couple of decoders, programs to help create keys for the more complex encryption, and an 88a compiler.
Mokalus of Borg
PS - I'll try to include an index, too.
PPS - Just say the word.