Have you tried contacting tech support? I found they were very helpful -- and courteous. I was experiencing a problem similar to what it sounds like you're experiencing, and here is a relevant snippet from Pogoplug support's response:
Engineering has duplicated and isolated an issue wherein a relatively small group of Pogoplug Pro attached drives go offline periodically. They are working on a new update which should permanently address your symptom. This update may be pushed to your Pro as early as the middle of next week.
In the meantime, we did notice that taking the following steps alleviates this symptom:
1. First, login to my.pogoplug.com, safely eject your drive(s) using the eject button next to the name of your drives (you can do this either from the home page or the Settings page). If this isn't possible, go to step 2.
2. Power down your Pogoplug with your drive(s) attached; only then should you physically detach drives.
3. Attach your drive(s) directly to your computer. For Windows formatted drives: Open 'My Computer' and right click on the hard drive, select properties. Select the 'Tools' tab, then under 'Error-Checking' select 'Check Now'. Check "Automatically fix filesystem errors" and click start to run the check disk. For Mac formatted drives: Start Disk Utility, highlight the icon representing your drive and click "Repair" button.
4. Once complete, safely eject your drive(s) and power cycle your Pogoplug, wait for a solid green LED on the front of the Pogoplug.
5. Reattach your drive(s) to your Pogoplug one at a time. Please wait for each drive to appear on my.pogoplug.com before attaching the next drive.
FWIW, I performed the steps they recommended, and my Pogoplug has been working like a champ since then.
Scott

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