[java] Why does Eclipse Java Package Explorer show question mark on some classes?

It sounds like you're using Subclipse; is that correct? If so, there's a great list of decorators and their descriptions at this answer by Tim Stone.

Here's the relevant snippet for your case:

Unversioned File - A file not under version control. These are typically new files that you have not committed to the repository yet.
Synchronized File - A file with no local changes.

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