I had this problem the other day using Windows 10, seemed to work after restarting my pc.
Also has happened with scripts, where the script just won't work, restarting (or probably even fully closing everything) and then opening again has seemed to fix it both times.
A big problem for me is when the bot runs to cut more bruma root (with safe tile toggled on) it will sorta derp out 1 square away for a few seconds, then click the safe spot tile and then the bruma root.
I just feel like if this was fixed as a smoother transition (not running 1 square away then...