That sounds like a significant difference. It's difficult to know if it's a food safety risk but the proficiency and calibration of what methods you are using should be baked into your HACCP plan (if you excuse the pun). If you have an error in your measurement or could have one, you need to make your targets more stringent to accommodate. Or you may realise that your controls are so tight that kind of variation wouldn't have an impact on food safety or quality.
Apart from working out if the error is one you can live with, I'd also be keen to work out the calibration and proficiency. Your scales used for the moisture loss should be calibrated to national standards and you'd need pretty accurate ones for that activity (I remember doing it in labs at school and being crap at it!)
The next bit I'd look at is if you can get signed up to a proficiency scheme. They exist for chemical and micro testing in general so I'm sure one will exist for water activity and moisture by drying. That way you can periodically test your staff and find out if everyone is capable of producing an accurate result. I'd certainly do this if my measurements were part of testing for food safety reasons.
If you are a member of a group representing your industry they may already have some proficiency schemes out there or alternatively, ask the lab you sent it for testing to as they certainly will.