The new UI system that Cyborg mentions would be a great place to start. I strongly advise looking at this topic https://www.hard-light.net/forums/index.php?topic=95091.0
and proceeded to run the FSO installer. However, when it wants me to select which items to install, many of the are already checked and grayed out.
This can be fixed by going to your user directory (such as C:\Users\username) and deleting fsoinstaller.properties. That will reset the FSO Installer to "factory defaults".
In addition, some mods, like blue planet, are no longer there.
Unfortunately, the host for the Blue Planet downloads is not currently online. They know about it and presumably are working on a fix.
I will have time in a few days to investigate those debug errors. In the meantime, feel free to give it a test playthrough.
NB - I didn't modify any ini files, just used a nightly and that appears to work ok, although I only play tested it for a minute or so, so can't vouch for stability etc.
Best of luck :-)
NB I did get the warning screen stating "there could be things missing, FS will try to run anyway etc." photo attached. Is this a problem? If so what would I need to do to fix it?
PS apologies for the terrible photo, screen shot didn't work properly
That image looks great to me, btw.