Sales Order Header Level freight charges got invoiced twice

Sales Order Header level Freight charge(34.95$) applied on two of the invoices

1) 106742560 -  Invoice amount 305.03 , Balance 339.98 - the difference is Freight charge (34.95$)
2) 106747752 - Invoice amount 1,345.69 , Balance 1,380.64 - the difference is Freight charge (34.95$)

Expecting freight charge should apply only for one invoice.
For your information all the lines are created on same day and did not done any changes on the lines, but only shipped in different dates.