Well that explains a bit, esp if you have closed loop O2 feedback turned on. I don't have any experience with narrow bands (which you have). I would turn off the Haltech's O2 closed loop feedback and just tune the base map using your Innovate readings. You can see the option for O2 feedback (closed vs. open loop) in the "Main Setup" page. If you feel like doing some wiring, you can feed your dual O2 innovate sensors into the Haltech and then you'd be in for a treat as it can perform real time adjustments that will hit the targets you specify (as long as your base map data is in the ballpark).

 

On the main Setup page . [02 control settings ] set to disabled . And [02 sensor type ] set to wideband

The only thing I find with closed loop on it is in the [input/output] page .
Under boost control settings

boost control....disabled
boost control type.....closed loop

 

Ok, so you have no real time adjustments. That's fine - you can dial it in by hand. Not sure why your tuner was having trouble though...