I ran into the same issue. Apparently, if the Copy Files task is set to import just one file it runs fine when I run the process flow it is in. But when using wildcards to import several files, it skips... except when the Copy Files task is the only object in the process flow. Then, it runs just fine. So, I found a workaround. First, place your Copy Files in a new dedicated process flow. Second, be aware that when you choose to run the project, it follows the order by which process flows appear in the Project Tree. And you can drag the process flows up and down in the project tree. So, adjust the order of the process flows in the Project Tree so that the process flow with the Copy Files task runs in the right moment. If you need to run stuff before AND after the Copy Files task, you may have to split a process flow into two flows. I reckon this isn't a perfect workaround, but it may be enough for the challenges you're facing.
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