There are a few key items missing from your post that would greatly help all of us help you out.

1) did you change the valve springs?
2) are you using hardened pushrods?
3) did you replace the old lifters with new ones?
4) did you change the the oil pump/timing chane and gears while you were there?
5) what head gaskets did you use?
6) what head bolts did you use?
7) did you use a pushrods length checker?
8) please be more descriptive on the "noise"..... IE only on cold starts, while driving, at idle, one side vs. the other, high RPMs...etc
9) did you change the injectors?