Replaced both fuel filts on 04 f250 6.0. truck was running fine prior, now has episodes of rough running and sometimes even stops running at idle. HELP!?

Use of aftermarket fuel filters on PSDs can adversely affect fuel pressure. Read Item 5, in the link below:

https://www.askmehelpdesk.com/cars-trucks/faq-how-troubleshoot-repair-maintain-hondas-selected-other-vehicles-46563-8.html#post1415281