In reading the last SoS thread, it looks like the bloat only occurs when removing the Civilization module. So, assuming that's indeed correct, you're in the clear if:
- you have the Civ module, but don't uninstall it.
- you don't have the Civ module installed at all.
- if you did have the Civ module installed, but then uninstalled and rolled back to a save you made prior to installing it.
FWIW I only use the Dungeons module...never tried uninstalling it, and never had any problems with it. My saves are all sitting pretty at ~9MB.