[bob.wolff68]

That starts to sound like an Eclipse plug-in problem to me.

Right-click on a project (left hand pane) and select 'Clean Project'
Are you able to compile code?
After compiling, on the project-pane, use the little 'triangle' to open up the 'Debug' folder ... is there a FRCUserProgram?
If so, you're able to compile for sure...that's basic toolchain validation.

Plugin - I'd suggest going back through the plugin installation on screensteps. In fact, I wonder if your auto-update might be turned off. Check the Eclipse preferences (Window->preferences in Windows) and look under 'Install/Update' - open that one up and select 'Automatic Updates' and make sure the 'Automatically find new updates and notify me' is selected. If not, select this, select 'ok' and then restart Eclipse to allow it an opportunity to check for updates. I think you can also trigger this by doing Help->CheckForUpdates.

If you're familiar with the command line, I'd still suggest the troubleshooting steps I mentioned about using ssh to look at the roboRIO directly.

Thanks,
bob