Dear pstake,
You have run into the bane of Omega dichroic head owners. Conceptually, adjusting the head alignment is as simple as it looks. The reality is that the design is clumsy and difficult. What I do is loosen all the bits that hold it on, prop up the head so that it aligns well on the negative stage but with the right side ever so slightly higher (it will sag back down when the connections are tight and the support is removed), then tighten it all up. The good news is that once it's done, you should have no problems for years.
Don't forget the screws on the side that control the fore/aft position where the arms connect to the head.
View attachment 87799
Good luck,
Neal Wydra