Don’t worry about retaking the ACT. You don’t need to submit both and have a high SAT. Your plan to retake it makes sense, and only submit the SAT.
A couple of questions:
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What is your motivation for re-taking an AP test? Your AP scores (as a whole) to date aren’t at the same level up as your grades or your SAT scores. AP scores aren’t required to apply…I am not seeing the value of spending the time to study for one test when you already won’t be submitting tests for all of your AP classes.
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I understand that Crohn’s can be incredibly debilitating and challenging. I am glad to hear that you have a diagnosis and hope you have gotten symptom relief. Your grades are good, your SAT is very good, and your ECs & awards are diverse and robust. How will you frame the idea that at the same time Crohn’s hindered your grades, you were able to participate in international competitions, found a non-profit, give a TEDx talk, lead several clubs, participate in orchestra at a high level, start a podcast, and much more. It’s a bit of a contradiction without some specific messaging. You have good grades, so perhaps an explanation for them isn’t necessary.
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As far as grades go, do you know how yours compare other students taking your very rigorous course load at your school? Although your school doesn’t rank, AOs will still compare your GPA to that of other current and past applicants from your high school. Understanding other GPAs from your high school and any Naviance data would help to calibrate your chances.