What header bolts do you guys use for long tube headers?

ARP Stainless. Length will depend on thickness of your header flanges (vary between brands)

Most SBF headers end up needing either a .750" or 1.00" header bolt, again, depending on the thickness of the flange.
 
Best would be the ARP's but i like a grade 8 allen head bolt myself...they're just as strong but you get to use an allen head to tighten them which is much easier.