Nodes bugged or amount restrictions?
There is an account limit for jade fragements, petrified wood, blood ruby and primordial orchid nodes. The only thing that is not limited are winterberries.
While those nodes generally reset with the daily reset, they have an additional cooldown if you last gathered them within, I think, 6 hours before the daily reset. This cooldown is somewhere in the 20 – 22 hour range, from what I’ve seen. The same is true of (rich) Orichalcum nodes, the floating Unbound Magic and a few other high-tier materials.
IMO, this cooldown should be shortened to no more than 18 hours.