Those chars are made for 1.0 only, sorry. You could ask to the creators to make a patch but they will say no because 1.0 has less bugs and works almost perfectly. The only thing I hate about 1.0 are sound issues (eg freqmul).
Some things that could be edited through Fighter Factory to make them WinMugen compatible are:
-victoryquote, this is used only in 1.0 to use different quotes against different chars;
-AILevel, AI can be scaled with mugen settings;
-cond
-etc.
When you get an error message, look at it in the char and try to edit it. But I would suggest to use only 1.0.