There are three major issues with EAC's leveled lists:

1) Some leveled lists have accessories (e.g. scarves, muffers) in the same list as actual outfit.

This goes for LL_Clothes_Wastelander and LL_Clothes_Underarmor_Wastelander. LL_Clothes_Wastelander in Eli_Armour_Compendium.esp has 42 items in the list, where NPCs will randomly spawn with one of the said 42 items equipped. The problem, however, is that five of them are accessories and not actual clothes per se:

• Mercenary Gloves
• Pilot Goggles [Forehead]
• Scarf [M]
• Bandana
• Muffler [M]
  

So roughly one out of eight times, NPCs with this item list will spawn with just some gloves, goggles, a bandana etc. with nothing else to cover their body. So these absolutely needed to go away from this list.

But it is possible for leveled lists to spawn with both clothes AND accessories equipped, provided the leveled lists are constructed properly. So that's exactly what I've done here! Instead of having a chance to spawn with just an accessory (and no clothes), I made it so the list has a 100% chance of spawning an clothes item, and a 50% chance to spawn one of the four accessories listed above (sans Mercenary Gloves for reasons explained later). I assume this is what Elianora wanted to do in the original mod!

2) The Railroad's outfit included a 10mm pistol in the armor leveled list.
Pretty much the same issue from the one above, except this one is a bit more egregious because one out of FOUR times, Railroad HQ agents will spawn with nothing but a 10mm pistol equipped. Liek, WTF????????

Eli_LL_Clothing_Railroad is built like this:

• 10mm Pistol
• Road Fatigues
• Railroad Fatigues
• Road Flannels
  

...So three out of four times, they will have something to wear (but without a sidearm), while one out of four times exactly the opposite happens. This has been fixed so they will now always wear one of three outfits in the list, and have a 50% chance to spawn with a 10mm pistol. Why 50%? Well, the NPC records that use this leveled list have another weapon equipped anyway (like a pipe gun), so while not completely redundant, I wanted to keep the 10mm pistol a sidearm that some agents prefer not to carry around. Besides, everyone hates seeing 10mm pistol over a mod weapon anyway :P
If this is not your thing, feel free to make adjustments to your own liking.

3) The "Wasteland Hipster Outfit" had a biped slot flag set that made it incompatible with some accessories.

This outfit uses slot 33 (for BODY, obviously) and 50 (Neck) as it comes with its own muffler. Sadly, this meant that it cannot be worn together with a muffler (the standalone one), scarf, or a neck-worn goggles etc. If you try to equip more than one equipment that share the same biped slot, whichever one that gets equipped last wins... and the loser (worn first) gets unequipped. This is why, when wearing some vanilla clothes and you try to equip a combat armor over it, you suddenly become naked.

And this is exactly what was happening with Wasteland Hipster Outfit. For whatever reasons, if NPCs spawn with both the out AND a neckwear, they prefer the neckwear over their clothes and walk around naked. Ehhhh....

Unfortunately, the only solution I had was to remove the slot 50 biped flag from the outfit. The Hipster outfit no longer comes with a muffler equipped... but it's a price we gotta pay so we don't have to see settlers wearing only a muffler while they have the outfit tucked away in their pocket (???)

Additionally, there was a similar case I found with the Mercenary Gloves; turned out the vanilla Farmhand Clothes also come with a pair of gloves and so cannot be worn together with the mod's Mercenary Gloves. Even more unfortunate in this case, I didn't want to risk creating a conflict with the vanilla armor record, so I simply removed the Mercenary Gloves from the leveled list. On the bright side, it only meant that they never went along with common Waster's clothes; the gloves would still look great when worn by more combative residents of the Commonwealth!