For those who have the same issue, I believe to have found the issue causing it. When removing the following key from the windows registry we have found to have no issues anymore with acrotray.exe.
[HKEY_CURRENT_USER\Software\Adobe\Adobe Acrobat\2015]
Within this key are 3 sub keys, all 3 keys need to be removed, or the 2015 key has to be removed in general. This has solved the issue for us.