The fact that only the $6,500 was distributed is problematic. Presumably the account gained $618.73 (or $618.63, the comment mentioning the earnings mentions both possibilities, but the $0.10 difference is insignificant), or 9.5189%. This means that, if treated as a return of contribution by submitting a substitute Form 1099-R (Form 4852), the $6,500 distributed represents a return of only $6,500 / 1.095189 = $5,935.05, accompanied by $564.95 of taxable gains. That means that the account still contains $564.95 of excess contribution made for 2017, subject to 6% penalty for 2017, 6% penalty for 2018 and 6% penalty for each year going forward until corrected by a regular distribution of $564.95 (which would be a nontaxable distribution of excess contribution basis after the due date of the tax return).
