"Where do your sons study?"
Translation:Ubi student filii tui?
Correct. Your answer is preferable since typically Latin verbs go at the end of the sentence.
By curiosity, I wondered if there were some kind of subject-verb inversion in Latin, to indicate a question, despite of the free order.
If we consider the SOV as the most common way, there's indeed a kind of inversion.
Affirmative (most common)
Caesar inimicum superavit. (Caesar defeated the enemy.)
Turning this sentence into a question (subject-verb inversion to add the "-ne" suffix)
Superavitne Caesar inimicum? (Did Caesar defeat the enemy?)
I think it only works for the yes/no question generated by the -ne suffix.