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Infinityc0r3 When humans take ants out of its natural life cycle into our ant farm, we're not doing them any favor, we're just using them to further our own agenda. We aren't indifferent to those ants, as their wellbeing is directly linked to our agenda (experiment, observation, education, etc...) that motivated us to act as such.
If you stopped caring about the consequence of your actions, then what's the point of doing said actions to begin with? Why can't you just quit? Being indifferent is about doing nothing at all and leaving everything as it is, not actively going out of your way to change things. This God clearly had an agenda, which doesn't necessarily align with MC and MC has every right to fuck with the God's life like God has fucked with his.
Heck the fact that you're drawing analogy between God's treatment of human and Human's treatment of ants implies that he's not an indifferent God, but a humane entity with agenda.