Couldn't tell you had a 5speed.
Spend your time on the heads, the lower intake is ok. It does need a little work around the injector bosses.
Research here, TRS, and RPS. There should be tons of info for you to read up on. I can tell you this. Dont plan on doing a set of used heads. The stockers tend to crack between valves.
I got you beat on the used intake, have had one for a about 2 years. Then I found this 5.0 a year ago, its still in the expo taking up space. I need to finish pulling it and get rid of the donor. To bad it doesn't have axles/wheels anymore.
99 x-cab 4x4 4.0l auto
mods, cranked t-bars, silencer delete, k&n drop in, Rebuilt trans ,Trans Go stage 3 shift kit, 3200stall Fuddle Racing Torque Converter,
VANIR 63mm TB, Roush split rear exit exhuast, E-Fan, JBA Headers
Auto up/down both windows, OHC, EATC (soon to be modded)
03 Crown Victoria Police Interceptor