Well, I just installed a Stage II on my 96 7.3 last night and drove it today without the CEL ever coming on.
In the past week, besides the intake, I installed a 4" exhaust & bumped my Edge Evolution up from "Tow" to "Race" with no problems. Don't think I'll go from "Race" to "Extreme" until I get the pyrometer & tranny temp gauges installed!