The FAFSA EFC formula will apply 20% to your savings. It will apply 5.64% to your mom’s savings (after any asset protection allowances). So it is best to have her report the money.
Will you qualify for a Pell Grant (EFC around $6.5K)? Fill this out with your mom and let us know the result : Expected Family Contribution (EFC) – BigFuture | College Board
How much can/will your mom pay for college each year?
Regarding your dad, it doesn’t matter than he’s undocumented, just that they are separated. Does he have a job? Is your mom in contact with him? Are there any third parties that can attest to his absence (your HS counselor, a pastor at church, etc.)?