I'd fix the two issues you mentioned with the mismatched injectors and the broken coolant temperature sensor. Both of these are going to make tuning the car to start correctly in cold weather somewhere between a royal pain and impossible. If you can get all the non-turbo injectors on one bank and all the turbo injectors on the other, you might be able to trick it using the dual table option, but any way you look at it, you're in for a headache with this.