Yeah, about that.
A truly omnipotent creator deity could easily design humans to be fully cognizant and programmed at birth.
A truly omnipotent creator deity could easily design a universe in which humans have both free choice, and cannot make certain choices.
We already know that's pretty much the case anyway. E.g. someone who is a sociopath cannot truly imagine what it means to be sympathetic or empathetic, but can still make choices. Because of neurological and/or psychological conditions, they don't care much about other people, and the decisions they make will be different than those with humans who are capable of empathy. But they can still choose to be kind, or at least choose not to kill for the fun of it.
In some cases, we will put people through challenging, even traumatic, even life-threatening situations as part of an educational process (e.g. Spartan-style hazing and training; adolescent rituals, etc). However, in most cases we do not say that it is morally acceptable to inflict trauma, attempt to kill, or successfully kill someone in order to train that person, or other people, in how to handle a bad situation. That is generally not regarded as the action of a benevolent person; so why would a benevolent deity do such a thing?
If I flipped a switch that caused a flood which killed 200,000 people and made 1 million homeless, and I knew it would have that effect, and I did it anyway, would you classify me (or my action) as good, bad or neutral?