Here is a new attempt to fix the issue:
http://www.macecraft.com/downloads/betas/jv16PT2014_private6.exe
I have made progress in locating the issue, now it is only matter of fixing it. To do so, I have also added more debug code to this version. So if the Software Uninstaller works with you, this version will work a bit slower due to the added debug code. When the issue is fixed, I will turn off all the debug code and publish the final version with the improved speed.
Thank you again for helping me solve this issue!