Firstly I have no Autronic experience....but are you sure that the missing crank teeth are in the first firing period?!
I had a similar issue when putting my Adaptronic on my VVTi 2JZGTE, and it turns out that the missing crank teeth are ~155deg before TDC (Cyl 1), so no matter what you do, given that there are only 120deg in a firing event (6 cyl) if Ignition 1 set to trigger Cyl 1 you won't be able to get the engine to time properly if Ignition 1 is wired to Cyl1 coil...
Does this make any sense?! I suggest getting the timing light out to check!
FYI. if this is the problem you can fix it by 'moving' the ignition (and ideally injection) wiring 'along' by one.
I know 3SGE BEAMS has the same trigger wheel (36-2) and has the missing teeth outside the first firing period as well so this might be the issue with 1UZ VVTi also...
See this thread for more info.
http://www.adaptronic.com.au/forum/i...10128#msg10128
Cheers
Wilbo
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