Glad this worked for you!
I just want to clear one thing up.
You're correct that you had to change the crank gear, because the reluctor lobes are different.
This is not because it was an auto to manual swap, rather because in 99/00 with the new phase2 engine they changed it.
Not saying you did anything wrong, just clearing up WHY you had to the gear, so others don't get confused.
The coolant "arch" is better known as the coolant crossover pipe. Interesting you had to swap it, I hadn't heard that before. But I suppose it makes sense.
Lower compression = perfect candidate for a supercharger