This is not anything that Fidelity would correct. It was your responsibility to make sure that no after-tax basis was rolled over to the 401(k) and roll each portion over separately.
You must file two substitute Forms 1099-R (Forms 4852) in place of the Form 1099-R that you received from Schwab. One substitute form will have:
Box 1 = amount actually rolled over to the 401(k)
Box 2a = 0
Box 7 = Code G
IRA/SEP/SIMPLE box marked
The other will have:
Box 1 = amount rolled over to the Roth IRA
Box 2a = same as box 1
Box 2b Taxable amount not determined marked
Box 7 = Code 1 if you were under age 59½, code 7 if over age 59½
IRA/SEP/SIMPLE box marked
