I hope you will get this message

ATR levels codes
atr1 7, 20, 34 1,2,3 (7 is a reference value)
atr2 0%, 5%, 15% 1,2,3 (0% is a reference value)
atr3 none, owner, other 0,1,2 (effects coded, 0 is a reference value)
atr4 .3%, 5%, 20% 1,2,3 (.3 is a reference value)
atr5 none, record, monitoring 0,1,2 (effects coded, 0 is a reference value)
atr6 0, 150, 300, 450, 600, 750, 900 EUR 1,2,3,4,5,6,7 (0 is a reference value)
Reference values are in SQ alternative, however reference values of all except of atr6 can also populate additional two non-SQ alternatives. This is where I see most resemblance between your and our case. (I hope I understood your research design properly).
We are planning to do a pilot study (based on sequential fractional factorial design), from where priors would hopefully be collected. Those are to be fed into a Bayesian effective design. The code we are constructing builds also on your correspondence with Michiel B. on this forum.
In addition to see how your case worked out I am especially concerned on how to implement nominal attributes in SQ alternative, as there will be no prior parameter estimate for the reference values. It is possible to estimate (n-1) parameters only for non-reference attribute levels. If I understand correctly you dealt this with adding the 'require' restriction. Am I right? How can Ngene calculate choice probabilities for SQ alternative as you do not have priors for reference values of dummy coded attributes?
I hope my question make sense ... and thank you very much for your reply.
Anže