I have found a few related questions on this, but they\'re all related to Intellij or on Mac OS. I\'m on Windows 8.1 and using Eclipse:
Eclipse Java EE IDE f
You're not alone in encountering this. I recently moved to 3.3.1 as well and am encountering this same problem.
This isn't the best answer, but this will probably help you today. Try moving back to the latest 3.2.x. (Currently 3.2.5)
I have a feeling it's related to MNG-5767 and a change that recently made it in. There may be some functionality in an m2e update or it may have something to do with the structure of your maven project. Without more detail, it's going to be difficult to tell.