Geez Gramphos I'm sorry to bug you with this (especially after all the great work you did on city filters), but I think you need to know it.
Game started with v1.16f. Upgraded to v1.17f around 1000 AD.
Using 0.83.0006 I added a bunch of units to the French (they were dying and I wasn't killing them, I wanted that honor myself

) in 1395 AD.
I upgraded C3MT to 0.84.0001 and in 1510 AD started to add units to the Egyptians (also dying and not by me). I made an error and tried to delete the last unit added and got an array bounds error, and C3MT crashed with a STOP RUN.
I restarted the 1510 game and got the unit I/O error from Civ3. Canceled out and loaded the same game from the Auto subdir, got the same error. Quit Civ and my desktop was rearranged. Rebooted, started Civ, loaded 1510 game from Auto and the same. Quit Civ, tried to restart - nothing. I reinstalled the v1.17f patch. The only game I could get to load is the 1395 AD version.
When I tried to start playing tonight the only version of my saves I could load was the 1395 game.
I finally deleted all the saves and the autosaves and repointed my C3MT shortcut to good ol' 0.83.0006. I'll keep some of those saves around if you'd like to take a look at them.
But, I'm starting a new game.