One thing to note about the mod launcher : It only detects mods that are 1 directory deep
So when you extract Pirates and Nomads V2.2 you need to extract it into \<SE4Directory>\Pirates or something similar rather than \suicidejunkiemods\pirates&nomadsv2.2
SJ : Dont suppose I can hassle you to change the format of the .Zip file can I?

And also to include a ModInfo.txt in the mod's root directory?

I can even provide one for you if you want.
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The Unofficial Space Empires 4 Mod Utility V1.7 (Revision 3)
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Download as a .ZIP <
HERE>
Download as a .RAR <
HERE>
Download as a .ACE <
HERE>
Check a Screenshot of it<
HERE>
Check an Alpha Shot of my Mod Editor (Unreleased) <
HERE>