With Steam you'll be patched ok, and I forgot it installs differently. Glad you've found it.
JSGME comes with GWX, but you should update it to latest version.
Another mod I'd recommend is Sailor Steve's Ships' Names, goes straight in to Commanders files not SH3/MODS folder. After you've finished a patrol open up Commander and select your kaluen, and then select other actions and patrol report, you'll get a better report including any vessels names and crew/pax/survivors(or not).
To be honest, there are so many other worthy mods out there but the ones I've mentioned I think are guaranteed to be in everybodys lists!