In order to reenable kovarex after removing NuclearFuel, you need to run
/c game.player.force.technologies["kovarex-enrichment-process"].enabled = true
But in order to run that without disabling achievements, I installed LuaCombinator 3 but game.player was a nil value. You need to run:
game.get_player(1).force.technologies["kovarex-enrichment-process"].enabled = true
if you are in a single-player world.
Posting here in case anybody else would find it useful.