All the bolts attached to the engine (from the engine plate - between the bellhousing and engine - forward) were painted with the engine except
Fan, dist, fuel pump, intake, valve covers, exhaust (may have paint or overspray depending on the pattern applied to the manifolds) long and adjusting alternator, and coil bolt. Water bypass hose and clamps as well as the coil plate were installed when everything was painted so they got a coat of paint also
Think that is it - if not someone else will pipe in
Intake was on the assembled engine but the current understanding is that there was a mask applied/dropped over it as well as the PVS when the engine assy was painted.
If I had gotten things done that need to be I could show you pictures of a freshly painted one
Hope this helps