If you would like us to investigate, you should submit an issue at Intel Premier Support. This will allow up to provide the files via a secure method so that we can examine them for correctness and debug any failures in the VTune analyzer.
Regarding tprofile3.1_009_win.exe vs. tprofile3.1_009novpe_win.exe, this is the Intel Thread Profiler package, with the first one being Thread Profiler + VTune analyzer and the second being just the Thread Profiler add-on to the VTune analyzer. That is, tprofile3.1_009novpe_win.exe assumes that you have already installed the VTune analyzer. tprofile3.1_009_win.exe installs the VTune analyzer and then the Thread Profiler.