You always get scanned entering major planets, just part of the lore of the game. 

Like going to the airport. 

Yeah but I have nothing on my ship stolen or contraband and the scanner is picking it up. I don’t want to ruin the proper intro to neon by starting in jail. Possibly a bug? I went to everyone on my ship and the cargo to make sure there weren’t any stolen or contraband.

Did you steal this ship, or was this your intro? If you stole it, you might have something laying around, I know I did and was confused why i got caught. If not, then idk, might be a bug. 

I stole the ship early in the game and have only had this issue recently.

RPG sale going on but not many JRPG's sadly,

Bought
Xuan Yuan 7 
Sword of Elpisia

Also saw that popular Kaorisoft games are coming soon to Xbox like Game dev story (15/09).

400 manual save slots?

You mean like with data saved on 400 slots?

And here I thought I was saving to too many slots (I typically do around 3-6 per RPG when I can lol).

Bet the insurance folk are playing Starfield.

So is the scanner saying that you have contraband?

Do you only get contraband warnings at Neon or New Atlantis and Akila as well? Have you checked the cargo hold, captain's locker, have you looked at the physical contents of your ship, into all your inventory? Maybe there's a hidden contraband item physically on your ship. Isn't there an option to just pay a fine and hand over the item?

There is a perk which lets you hide contraband but it's pretty useless to get if you aren't planning on being a thief.

I think Fallout 4 had a feature on the status screen to tell you all the skill books you had, which Starfield had that.

What you mean? I didn't play Fallout 4.

The skill books are in your inventory, ordered by number too, or do you mean something else?