I don't have a solution but the following might provide some ideas for tracking this down.

I had a similar problem some time ago and the complaint was about a file named '0x00fe'. I finally concluded that it was listed in the project workspace somewhere. Deleting the project and re-importing it fixed it for me.

I would guess "Habitat Preservation.exe" is the name of the executable for your project. Since it is an output file, I would expect this to appear when trying to create it, say, during a build. However, I wouldn't expect it at other times. I suppose you haven't noticed any correlation between its appearance and your activities.

I'm guessing you are running Windows. Under cygwin, perhaps? Cygwin used to have a problem with spaces in names. I haven't used cygwin in a long time and I don't know if that ever got fixed. Perhaps renaming your project to remove the space will work. Other than that I don't really have a clue.

I assume since you say "pops up" it is an error dialog and it is from Eclipse. There is an Eclipse error log you can view which might give more information.