INTAKE: kind of a mute point with a 6.9 N/A
you will not benefit anything for drawing more air with a modified intake.
the intake ports are huge, and unlike a gasser, they do not atomize a fuel ratio, they just flow air through an air cleaner.
if you really really wanted to spend the time and money, theroetically you can make a intake out of steel flanges and tubes.
sticking straight up with air filters on them, but that would be a part of what i call
"ALL SHOW AND NO GO"
YOU WILL NOT SEE ANY HIGH hp NUMBERS OUT OF A NATURALLY ASPIRATED 6.9
just not really worth it.
the engine would prolly run without an intake.
HEADERS: going to your exhaust shop and "having them bend somthing up", will look like ****.
what are your welding skills?
ive built dozens of headers, now a days i wont even think about building headers unless its 301 stainless .065 wall. TIG welded
nothing but mandrel bends for me.
it takes time to build headers. they are not for the faint hearted.
again, without a turbo, youre doing this for all show, and no go.
no disrespect, but thats kinda lame...

do what you wish, but if i were you id spend the time and effort on a turbo
by the way, welcome to the forum.
you should really check this site out, its amazing!
http://www.oilburners.net/forums/forumdisplay.php?146-Introduction