Oh wow! I totally get your disappointment at receiving your bag like this.
I have had a tote (not JD, but leather) crushed like this by a friend who borrowed it & put it in her suitcase for travel

I would suggest stuffing your tote with a shaped cushion / or soft packing paper/ or bubble wrap that fills out the bag without stretching it out of shape. Open up the side buckles so that the stuffing fills up the bag nicely. This will help the creases to fade away, you can leave the bag with the stuffing inside for a few days, and I’m sure the bag will get back its slightly rounded shape in a bit. Taurillon leather is quite supple & springs back after crushing.
I wouldnt steam the leather unless you’re experienced, because it could affect the grain or the structure of the leather, making it limp if over-steamed.
For what its worth, the scratch on the handle looks like a nail mark due to handling, it will fade away in next to no time. Try rubbing the scratch with your finger, it should start to disappear already.
But I would definitely take up the packaging issue with JD, its upsetting to say the least. The flat cardboard shipping box is a cost-saving measure which is totally not justified.