Auto Mark and FX

In the show I just did I had a prologue that had a character entering and being hit by a round of lighting from a step based effect of moving lights flashing and then needing moving the lights so that they can do it again but on another location on stage. What I ended up having to do was to record the cue first with a intensity value if 01 and then add the FX and update the cue. If I did not do this the light would auto mark to the next time they were used. 

Is Auto Mark completely unaware of FX intensities?

Or am I missing something (very likely happens daily)

Thanks for helping me understand.

 

 

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