How much do you usually get from the filters. As far as contamination
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The coolant kits do a good job. I have one as well. 6.4 blocks were cast in sand so they recommend first change after 3 months, then 6, then 9, then a year. After the 1 year mark they say to change them once a year as long as your first 1 year change filter looks like it isn't getting much sand in it anymore.
Check your lifters and rocker arms if you ever get the chance. If they are worn badly, replace all the rockers with OEM and if the lifters are worn badly there is now an HD option that has an added squirter built in to it for added oil distribution, it's worth the upgrade if it comes to that.
Oil and fuel filters like everyone has said for sure. Oil cooler sounds like it's fine. If it ever goes bad, Bulletproof Diesel makes a super nice oil cooler kit with a larger cooler if you don't want another OEM.
If your water pump ever goes bad BPD also makes a nice billet unit.
Radiators are known to leak on 6.4's. The OEM radiators seem to do well as long as the front mount body bushings are in good shape. Keep an eye on those, its always good to check and replace those if needed when/if the cab comes off.
No Limit Intake is a great intake, I would remove the EGR completely like everyone has recommended. Make sure to get good tunes from whoever you choose, Ghead is a popular option among lots of people, but there are many to choose from. Good tuning can really wake your truck up and keep it running much better and help it live longer.
If you ever decide to add power and make over 550hp-600hp, to be safe, headstuds (o-ringing the heads while they are off would be a good idea too if you ask me) and a built transmission are key in making your truck last. Upgraded pistons and valvetrain at that point are a good idea as well but I understand people have budgets when they do this but I thought I should just point this out.
Sorry for the long post but in basic stock form or tuned/dleted those are the main problems I can think of on a 6.4 to address or keep an eye on as the miles keep racking up. Hope this helps!