If the college requires non-custodial parent information for financial aid, yes. Note that getting cooperation from the non-custodial parent on financial aid forms (usually CSS Noncustodial Profile) is often the sticking point, since divorced parents may be uncooperative to spite each other.
If the college only requires the custodial parent information (e.g. colleges that need only the FAFSA or say that they do not need the non-custodial parent information), then her cooperation or finances will not affect your financial aid.