Yes, you do need to swap the harness. Batch fired injectors have 3 wires going to the injectors; a common hot wire, and a signal wire for 2 sets of 4 injectors. It is impossible for the ECM to sequentially fire the injectors unless each one has it's own signal wire.
The attached picture is the schematic for a non-HO 5.0. Look at the injector wiring.
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