I do not think scanning the barcode twice in this situation is necessary. If you scan it once, you know the barcode and position for what was physically loaded onto the system. These values can be placed into an array. When you import the list of what to test, it could have multiple entries to transfer from the same barcoded sample(s). You can reference the array to confirm the tubes were loaded, build a sequence for the pipetting, etc.
There are several posts about worklisting and barcode matching on the forum. Here’s a thread that provides example methods on approaches you can implement.