I cannot do much about missclicking the tree, have no idea what causedd the bot to "spaz" out but I will be looking into both of the.
For Seren spirits I'll check what's wrong and fix it.
Edit: Should be fixed in 1.1.2
That's weird since I just tested it with account that has lodestone unlocked and it works fine. Maybe the position you are trying to generate it from is preventing it from generating?
Do you have quick teleport enabled? If so disabling it should fix it.
I have temporarily disabled phasmatite due to a bug. I do plan on adding it back sometime this week.