The throttle cable is too long. The problem here is that the throttle cable's mounting position on the 03 IM is further away than the ZE IM's. This will leave you with about 0.75" of slack in the cable. The solution to this is to remove the throttle cable bracket on the ZE IM then flip it and reattach it to the IM. This will remove most of the slack. Slack can be removed or added by adjusting the plastic collar on the throttle cable as per the Haynes manual. Once you are done it should look like this:
The intake hits a couple of black thingies (relays?) that are mounted on the driver's side firewall This will usually only happen if you use a combination of the ZE IM, the TB phenolic and the HotShot TB elbow. You may or may not have a problem but if you do, this may help. You have to unbolt the bracket that the black thingies are mounted on and rotate it to another position on the bracket as seen in the pics below:
Stock position of the black thingies
The black thingies moved out of the way
2)
There are only 3 small vacuum port nipples as opposed to the 03 IM's 5 small vac nipples. The shortage of nipples can be solved by using vacuum "T's." For Probe GT's, you have to "T" the vacuum source coming from the passenger side IM elbow. This will provide vacuum to the HVAC (heating ventilation and air conditioning) climate controls and the one way check valve (that green and white ball thing) that leads to the 2 vac chambers beneath the IM. If you don't provide vac to the climate controls, then you will only have air blowing thru the defroster vents. (Note: IIRC, MX6's should not have to "T" the vacuum here since their HVAC controls are actuated by electrically powered motors rather than vacuum actuators.) The other "T" should be placed at either the vac nipple at intake runner #6 or from the nipple at the rear of the IM. If you "T" at runner #6, it should provide vac to the fuel pressure regulator solenoid (FPRS) and the cruise control mechanism (if present). The vac port at the rear of the IM should go to the "Solenoid Valve (Purge Control)"
Vac nipple summary:
Left elbow--> HVAC and vac chambers
runner #6--> FPRS and cruise control
rear IM--> Solenoid Valve (Purge Control) (basically, the solenoid mounted to the right of the VRIS solenoids)
These pics may help you:
Vac port on passenger side IM elbow
Vac port on #6 intake runner
Vac port at rear of IM just behind the TB
Hard line vac under IM
I reused my 03 hard lines that were under the IM, so be sure to route everything according to
Rick's vac diagram so that everything connects correctly.