Good to be playing kobolds again. I liked most of the new workshop/tent structure. Will be awesome to see the manual to match so I can plan ahead better, but it's normal for a kobold camp to look chaotic. Here's my feedback for bug and tweaks.
I had no problems with disappearing shovels, and they seemed to work as intended. I had to make sure my digger was dedicated to the job as they'd often wear out before even being used. I only got into a couple of soil layers for food storage and to access sand and clay. Made a simple tomb room and another for beds - each no more than 10x10 in size. 4-5 shovels maybe?
There was one bug with stockpiles I couldn't seem to fix. Anything not on the same layer wasn't being found for the job. I don't recall that being a known bug, but usually with other races I have the stockpiles next to the workshops. I only noticed this because my surface workshops wouldn't pick up anything from the food cellar. (globs for tanning, tallow, etc.).
On the embark screen, I could not see a way to pre-train bola-bolds. The hammer/bola skill wasn't on the list. It was previously I thought.
Suggestion for the Kobolds weapons...Hunter migrants showed up with Totem-Slings likely due to it being the crossbow skill (remapped). Maybe that should swap with the slinger skill (= pike?). That way something with common ammo from the craftsbold can be made for the hunters. That or some sort of generic totem-ammo, but that doesn't seem as fun, or even ideal for hunters with only 3 shots per stack (can bullets be assigned to work with 2 different weapons classes?). Ideally I'd like to see it so that both slingers and totem-slings are crossbow skill, then you have some way to train up kobolds before using the totem-slings and their very expensive ammo. (like dwarves with crossbows and javelin-throwers - one just a large version of the other). The freed up pike skill could be used for magic wands, the bolas (to be military instead of throwing) or something else new.
EDIT- On the topic of weapon logic.., Lasher seems to fit better for Bolas melee skill.
For new kobold players...I died pretty quickly to elven sworddancers with mithril krisses and armor. I would recommend limiting your world to only a few simple races like goblins if you want to get a bit further. Of course that messes up the siege threat to thieving however.