Yeah if you wiped that gunk off with a cloth then probably you dumped it in the spark plug hole.
That’s why every time I take my intake off I stuff a rag in there. If my spark plug hole is going to be exposed for more than 20 seconds I shove one of those blue paper shop towels in there for the same reason.
But dude you sound like a reasonably smart guy… would you really wipe that gunk right into your open spark plug hole?
I mean we’ve all done dumb stuff by accident. I once broke an aluminum TDC finder rod in the spark plug hole of a blown Chevy 454 and damn I sure felt dumb… had to pull the head off to get it out… (head shaking)
The one and only time I used an aftermarket doohickey to find TDC. Before and after that I went straight back to relying on flywheel marks and wooden pencils to verify TDC on anything that had a cylinder…