13 psi has been the low end of the spectrum for intercooled trucks, in my experience, and that was with the 21cm housing. WIth an 18, you should see a minimum of 15psi, preferrably closer to 18-20. I would guess either a) boost leak, b) fuel restirction (takes fuel to make boost), or c) clogged air filter. Are you getting any smoke with thes, and if so, what color is it? Retarded timing can cause low power. (you mentioned this occuring over a period of time).
Now, test the lift pump pressure. Should be in the neighborhood of 3-5psi @ cranking speed. Not sure what the converts to in idle speed pressure.
Next step is pop testing injectors- they should be even and have a fine spray pattern. Most fuel injection shops will pop test them for free if you remove them and take them in. Book calls for 3550psi (245bar?). Any more than 500psi below this needs cleaned and recalibration. I gained 4mpg in a truck by just getting the injectors cleaned and reset. You will need to get new sealing washers to reinstall them. Get the same thickness as what was in it before. That will make a world of difference in smoke and power.
Daniel