Arch form and midline as the frame for everything else
Before a single tooth is moved, the setup needs a frame. Arch form comes first, because it decides how much space the arch offers and therefore how much of the crowding has to be met by IPR, expansion or proclination. The safest default is the patient's own pre-treatment form, since it reflects the soft tissue envelope the dentition has settled into; a different form is used when you prescribe one, and the plan says which was applied.
The midline is the second decision, and it is two decisions rather than one. The upper dental midline is related to the facial midline, judged from your smiling frontal photograph, and the lower is related to the upper. When both cannot be corrected without unwanted movement elsewhere, the upper to face relationship is usually the one worth protecting, but that is a clinical call and the setup follows what you prescribe.
Both choices are recorded on the plan rather than left implicit. A setup that quietly widens an arch to resolve crowding, or shifts a midline to make the numbers work, is a setup that will surprise someone at the chair. If either has to move to reach your objectives, that appears as a note for you to accept or reject.