Go into the race entity files and remove the research for the superweapons and reduce the research count by 1.  Now no one can research (and thus no one can build) superweapons.

ConvertData.exe.  It converts them from binaries to text files.  You have to run it from the command line though.  Or you can just download the text form of files.

Here's my personal store of reference entity files.  There are two batch files included along with ConvertData which save me the time of having to manually call it for every file I want to convert.

http://www.mediafire.com/download/lzevn3nds3r9ikx/Reference_1.82.zip

The game can load the text versions of files, it just does so more slowly which is why they're in binary by default.

I'll run through an example with you: PlayerPhaseLoyalist.entity = Vasari Loyalist.  Remove line 134 and change 74's value from 154 to 153.  After that, Vasari Loyalists won't be able to research it anymore.

It would be nice if super weapons had their own defenses.

Had a thought for a super weapon modification.

Cut their size by 2/3's, and their damage by 2/3's, but also their damage by 3/4's. At least the Tec ones. It wouldn't make that much sense for Vasari ones to be that way since their main function is disabling orbitals and making a temporary phase node. It wouldn't make sense for the Advent to do that either.