Are you the one, while running the SH Validator program, that put some of the errors into the Ignore list? Some of those are "Environmental" items, and are put in that part of the list by the SH Validator app.
Have you done as Rockin Robbins suggested, and removed the game and Save folder (My Documents \ SH4), and then re-installed? You can copy your MODS folder inside the game folder for re-use, other than the JSGME files. Ditch them. When you re-install JSGME, use the Snapshot feature of it (Tasks menu). You can use that to compare your files after removal of mods.
If the 4 gig applet didn't help the situation, you're either running into an invalid Unit in the game (ship, plane, etc.), or you've got "mod soup" as Rockin Robbins is thinking...
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"...and bollocks to the naysayer/s" - Jimbuna
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