The filter filters the oil before it hits the bearings and top end. I wouldn't worry too much about that. If that stuff is hurt, it's rebuilt motor time anyway. Besides, if you've ever cut a filter open, you know that not much of anything gets past the filter media.
More important is pre-filter stuff. The oil pump is a gerotor design, with two rotary gears inside. They are made of powdered metal, and can break under excess stress. They probably didn't, and they're probably fine. But pull the oil pump, disassemble it, clean everything and inspect it, and clean the hole in the block where the pump feeds from the pickup tube. Clean the pickup tube excessively, or just replace it.
Find some 4.6 racing websites like Sean Hylands, and read up on how to inspect and measure the clearances on the oil pump. Check it, and put it back together and back in. Or if you can't sleep at nite, just buy a new pump.
As stated before, the chains and gears are fine. Just clean them up with solvent. All new guides and tensioner arms are a must. And if you've got the heavy cast iron tensioners, take them apart carefully, clean them up, inspect them, and reuse them. If you've got the composite tensioners, replace them.
Some guys like to "prime" the oil pump by packing it with vaseline. It supposedly helps to prime the pump quickly, and dissolves quickly into the oil once running. I'm not sure it this is a good thing, or not. Probably 6 of one, half dozen of the other.
I would pull the fuel pump relay, remove the coil packs, pull the spark plugs, and spin the motor over quite a bit with the starter, to build up oil pressure. Then put it all back together and crank it up, and maybe do a couple 500 mile oil changes until you feel comfortable nothing else is coming out.
While you have the plugs out and coil packs off, disassemble the coil pack boots and springs, clean the coil terminal (at the spring connection), maybe even buy some new coil boots/spring kit, and a fresh set of motorcraft platinum plugs. Your motor will go for a long long time now. Just make SURE you set the cam timing up correctly. Hopefully, you took my advice and put the motor at TDC on #1 compression before disassembling the chain stuff. Or made sure somehow that the cams didn't rotate due to spring pressure.
What did you have to do to pull the oil pan off?