Sorry. This is a complete no-no for me. Almost all of my groupings are sets of MS Word and Acrobat documents. When will this limitation be removed?
Unfortunately the sand box in Acrobat is something that only Adobe can fix. They chose to make their application incompatible with other applications.
There is a setting to disable the sandbox in Acrobat which would have solved it, but we are currently auto excluding ALL copies of Acrobat as we have no way to detect if this is on other than it breaking which is something only the user will see.
Going forward we plan to detect this setting so if you are not using the sandbox option in acrobat then you will be able to group but if you do sandbox then you will not be able to group Acrobat.
Please be aware that there is no standard for an application to expose what file they have open and as such only Excel, Word and Powerpoint will save the filenames to reopen then in a saved group. You are able to manually edit the groupy file to add in the paths, but Groupy itself cannot determine what the right ones are. The previously mentioned Office apps have a way to ask them what file a window is.
There is a small exception in that if the filename was used in the command line (so you double clicked on aaaa.txt), saving that group may well reopen that document. If you loaded up fffd.txt later it would still open aaaa.txt instead though.