Hi,
You need to try all options with your system to get solution for your requirement. Just spent 3 -4 hours with your system to get a solution for you!
Considering you have done purchase order with freight condition type and freight vendor assigned to it and Goods Receipt completed for purchase order.
Now do invoice verification for purchase order for material vendor(Main) only by editing amount to 1000 $ for material value and Remove the GR/IR Clearing indicator' in MIRO Screen( Select only Goods/service items).
AND
Do invoice verification for purchase order for freight vendor by editing amlount to 100 $ for freight value and Remove the GR/IR Clearing indicator' in MIRO Screen( Select only Planned delievry cost):
NOTE:
If you are having problems on MIRO posting for your old purchae order & now create a new purchase order in DEV system and try solution for all options provided !
Regards,
Biju K