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Are you using Google Drive Sync? If so you will see your files in a standard File Explorer box. You should be able to point the directory tool to that folder to load files names, and the Dynamic Input to open in Alteryx in batch. Checking whether they have been processed depends on how you check for that. If it is by name or date, then easy, just filter those out. If if has to do with what is in the data itself, then you would need to use a batch macro to check each file, and output the file name of those that are 'unprocessed'.
You can use the Dynamic Edit to point to a template, and check the box to include the file path so you know what to keep. Once you have the ones you want filtered out, use the Dynamic Input again with those file names and run them through the process. A batch macro is a great way to do these so it keeps all the files separate.
Scott Jones Strategic Sales Engineer Alteryx, Inc.