Some settings are stored in the registry, and according to
this post they need to be transfered as well.
I can't say for sure which ones, but these look like they could be relevant:
HKEY_CURRENT_USER\Software\Telltale Games\JPJournal
HKEY_CURRENT_USER\Software\Telltale Games\JPScenario
HKEY_CURRENT_USER\Software\Telltale Games\JPScore1
You could try exporting them using regedit on your old computer, and importing them on the new one.
I don't know your skill level, therefore a warning: The registry is a place where it's easy to break things if you don't know what you are doing.
EDIT:
I did some extra work to make it easy and safe to transfer the registry settings.
All you need to do is log into an admin account and open a command prompt. Then you enter and confirm line by line:
regedit /e %USERPROFILE%\JPJournal.reg "HKEY_CURRENT_USER\Software\Telltale Games\JPJournal"
regedit /e %USERPROFILE%\JPScenario.reg "HKEY_CURRENT_USER\Software\Telltale Games\JPScenario"
regedit /e %USERPROFILE%\JPScore1.reg "HKEY_CURRENT_USER\Software\Telltale Games\JPScore1"
That will export the three registry keys into individual files. Then you can navigate to %USERPROFILE% in the windows explorer and copy the files to your new computer. On the new computer you just need to double click the .reg files and confirm in order to import the settings.