If you just just put the substrate in, the water will be extremely cloudy. This will settle over a few days. It should not be a problem to put the rock in when it is cloudy.
If you cure the rock like the article on this site says, you will need to do 50% water changes every other day. This will help too.
Should not really be too much in the water for the skimmer to pick up really. When you put the LR
in, that will change.
*180 gal Display, 100 gal basement sump, 33 gal refugium, 3x250 MH, 2x160 VHO actinics, zoos, some softies, LPS & lots of acros and other SPS.
*100 gal prop tank plumbed into main system w/ 2x96 PC lights and 1x150 MH,