I am using version 0.3.2
I don't know if this is a bug exactly (or avoidable), but circuit elements do not seem to start simultaneously when a level is loaded.
I have a button with an output which goes to XOR gate which goes to a not gate which activates a toggle. It seems that it takes a fraction of a second for the button to turn on when loading a level, which causes the not gate to be active for that very short duration.