You have some glass in the hole. That's all that really counts. As far as a professional. What possesses people into thinking that a monkey glueing in windsheilds can install that glass? I was a monkey glueing in windsheilds too, and I continued to glue in windsheilds because it went with the teratory, but it didn't take long for me to discover that installing frameless doorglasses was an area that allowed me to shine because most glassmen are at a total loss as to how to install one. In fact, it was the door glasses in the hump back Seville and Alante that put me where I am at today, and if it weren't for them I'd probabally still be ratteling around in an apartment, not living in a mortgage free homme.
The problem you're facing is that the quarter glass aligns with the door glass not vice versa, meaing that the doorglass adjustmet is done first; then, the quarter glass is adjusted to fit the doorglass. It's possible to do it the other way, but the best fitting adjustment will be done by doorglass then quarter.
It's tough to explain the adjustment. As you have found out, there is a fore/aft, in/out, and back/forth on both glasses. You just have to play with it.
The adhesive used is either 1/8" or 1/16" butal. I cannot remember because I have been out of the business for almost 17 years. What you can do is hold the top part of the sheild in place with tape, insert the "insert" areas of the sheilds into the inside bottom of the door. Then you can tape the edges with masking tape.