Your clutch bypass relay is correctly connected to the ignition switch starter wire but VH-8 that the R/S is using for starter output/kill is listed as a different color - barring some unseen reason, it should be the same wire for both bypass and r/s starter output/kill.
You could omit the clutch bypass relay by moving your RS-6 and RS-7 to the DB/OG at (or after) the clutch pedal switch.
You have the rear door trigger on an instant trigger which is fine but typical installations have it on a door trigger to give warning chirps and allow the owner to disarm the alarm before the siren goes full bore.
Unless there's an unseen reason, you don't need to have a sensor relay nor do they all need to be connected to a GWA. When the alarm is disarmed it will ignore triggers from powered sensors.
A Tach/RPM signal could probably have been obtained at the PCM vs putting in a 454t, but either will work.
Not sure why you're connecting VH-17 to ASTH-18 and triggering the door input with the dome light when you're MTS mode relay setup is using VH-16 and ASTH-15 - the proper door trigger connections.
Further to the above, I don't know what you are trying to accomplish with the MTS mode relay altogether. It seems like you're trying to cheat the safety strategy of the system. If that's the goal and what you intend to do then so be it. Without knowing exactly how you intend the MTS mode relay to function and it's purpose I can't say if it's going to work or not. All I can say at this point is there are other simpler ways to cheat.
You horn honk lists a "Relay3" in your Relay section, Relay 3 doesn't show any connection to the horn honk. But like above, I have no idea your intention for Relay 3
You mention techtip 1921 and maybe someone else can chime in but I don't believe it applies to your truck. TechTip 1921 is for newer fords than your 2000.
I can see you're going all out to attempt to prevent theft of your truck but it already has two very good security measures going for it - it's old and outdated (by 22 years now) and it's a manual transmission. Most typical car thieves today want neither of those.