Well, depending on whether you're planning on having more children or not, it may be more financially feasible to just test baby. Assuming you're keeping the baby either way, if you're not planning on having more children, and you take steps not to, couldn't you just test baby with the full test??
If, however, you do want to have more children than 1, at some point, it will be essential IMHO to test daddy with the full sequencing/deletion testing through Ambry or Quest.
One last thought, if baby will be on medicaid, you may have to jump through major hoops to have baby tested, depending on the state. <hr>
Edited to add: I apologize, I just realized Daddy was already tested so my points aren't valid. I'll keep them up just in case it helps someone else.<hr>
Good luck with the testing!! Praying for NEGATIVES. Oh, wanted to add, on our insurance, testing through Genzyme (90 most common mutations only) cost about $300.