The 3D environments on their own are fine, the 2D sprites on their own are fine, but the two together look extremely weird and janky. I don't mind the character sprites very much (Fire Emblem mixes 3D environments with pixel character sprites and it's never bothered me), but interactive objects also being 2D really sticks out like a sore thumb. The fact that some objects do have 3D models (like the caravan wagons) just makes this worse, as it gives the game an inconsistent and unfinished look.

I appreciate that 3D models are hard to make and this is probably beyond your budget right now, but I would consider remaking interactive trees/boulders/etc. as 3D models in future games to help them fit in with the environments better.

(I really should have said this on Telepath Tactics Liberated, but I didn't know it existed until now. Personally I preferred the fully pixelated look of the original Telepath Tactics, but I guess that ship has sailed.)